New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4125982	35 (0.710)	4 (0.090)	4/242	NT	9.4%	intergenic (‑151/+35)	PP_3629/opdT‑II	hypothetical protein/tyrosine‑specific outer membrane porin D
	?	NC_002947	= 4126008	44 (0.940)					intergenic (‑177/+9)	PP_3629/opdT‑II	hypothetical protein/tyrosine‑specific outer membrane porin D

GTCTAGCCCCATAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACCACATACTTCACC  >  NC_002947/4125864‑4126155                                                                                                                                                 |                                                                                                                                                    gTCTAGCCCCATAGCCCCGGCGTACCTGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAaggt                                                                                                                                                 >  7:230443‑M2/1‑145 (MQ=255)   cTAGCCCCATAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAaggtg                                                                                                                                                >  3:10868‑M2/1‑143 (MQ=255)          cATAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATcaca                                                                                                                                        <  4:154790/149‑1 (MQ=255)          cATAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATca                                                                                                                                          >  6:211115/1‑147 (MQ=255)          cATAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATca                                                                                                                                          >  6:9777/1‑147 (MQ=255)           aTAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAg                                                                                                                                       <  7:125832/149‑1 (MQ=255)                 ccGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATc                                                                                                                                   >  3:87203/1‑147 (MQ=255)                 ccGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATc                                                                                                                                   <  4:87203/147‑1 (MQ=255)                      gTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACg                                                                                                                            >  6:62264/1‑149 (MQ=255)                               gCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCa                                                                                                                   <  1:7206/149‑1 (MQ=255)                               gCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCa                                                                                                                   <  3:42371/149‑1 (MQ=255)                                  ccTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGa                                                                                                                <  5:9777/149‑1 (MQ=255)                                  ccTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAAGCGCCAACGGGTACTCCACgc                                                                                                                >  4:80271/1‑148 (MQ=255)                                   cTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGa                                                                                                                >  7:79408/1‑148 (MQ=255)                                      accaccTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGatcat                                                                                                            >  8:108324/1‑149 (MQ=255)                                              aTGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACt                                                                                                     <  5:211115/148‑1 (MQ=255)                                                   aaTGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATcaca                                                                                                                                        <  2:221274/108‑1 (MQ=255)                                                   aaTGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATcaca                                                                                                                                        >  1:221274/1‑108 (MQ=255)                                                                 aGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGaa                                                                                 >  1:199610/1‑149 (MQ=255)                                                                                   aaaaaGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGggtggt                                                               >  6:152915/1‑149 (MQ=255)                                                                                           ccccAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGc                                                       <  8:79408/149‑1 (MQ=255)                                                                                            cccAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGc                                                       >  3:101266/1‑148 (MQ=255)                                                                                             ccAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCggg                                                                   <  3:93342/135‑1 (MQ=255)                                                                                             ccAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCggg                                                                   >  4:93342/1‑135 (MQ=255)                                                                                              cAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGaa                                                    <  4:114963/149‑1 (MQ=255)                                                                                               gcttggggcgcCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAAc                                                   <  3:256731/142‑1 (MQ=255)                                                                                                    gAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGggtg                                                                 >  7:234496/1‑130 (MQ=255)                                                                                                    gAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGggtg                                                                 <  8:234496/130‑1 (MQ=255)                                                                                                         ccAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGa                                          >  3:24262/1‑148 (MQ=255)                                                                                                         ccAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGAc                                         <  3:80271/149‑1 (MQ=255)                                                                                                          cAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAaggtggattttctggcgctccgcttggggcgctttttttatcggcttgatcgcctatcaatcctgcatttgcatcaggtggtcaggtgct                                                           >  2:225824‑M2/1‑40 (MQ=255)                                                                                                          cAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAaggtgcattttctggcgctccgcttggggcgctttttttatcggcttgatcgcctatcaatcctgcatttgcatcaggtggtcaggtgct                                                           <  1:225824‑M2/130‑91 (MQ=255)                                                                                                          cAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGa                                          >  1:166925/1‑147 (MQ=255)                                                                                                              aaaTCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGt                                     <  4:24262/148‑1 (MQ=255)                                                                                                                    aCCTAAACCAAAGGAGCAACAAGGTTGCCAaggtggattttctggcgctccgcttggggcgctttttttatcggcttgatcgcctatcaatcctgcatttgcatcaggtggtcaggtgctaccggtacgccggggctatggggcta                                 <  1:308427‑M2/146‑117 (MQ=255)                                                                                                                    aCCTAAACCAAAGGAGCAACAAGGTTGCCAaggtggattttctggcgctccgcttggggcgctttttttatcggcttgatcgcctatcaatcctgcatttgcatcaggtggtcaggtgctaccggtacgccggggctatggggcta                                 >  2:308427‑M2/1‑30 (MQ=255)                                                                                                                    aCCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGACGATGCCCGGGTGGTGGCCTGGCGAACCCGCAAAGACAGGTCCTTGGc                              >  8:250586/1‑149 (MQ=255)                                                                                                                            cAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCg                      <  7:108324/149‑1 (MQ=255)                                                                                                                            cAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCg                      >  8:34585/1‑149 (MQ=255)                                                                                                                             aaaGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGt                     >  6:304066/1‑149 (MQ=255)                                                                                                                             aaaGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGt                     <  4:101266/149‑1 (MQ=255)                                                                                                                               aGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCt                   <  5:152915/149‑1 (MQ=255)                                                                                                                                     aacaaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCAGTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGccc                       >  8:128623/1‑139 (MQ=255)                                                                                                                                     aacaaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCgcgc                         >  6:38868/1‑137 (MQ=255)                                                                                                                                     aacaaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCgcgc                         <  5:38868/137‑1 (MQ=255)                                                                                                                                     aacaaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGccc                       <  7:128623/139‑1 (MQ=255)                                                                                                                                     aacaaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGcacca             >  5:127701/1‑149 (MQ=255)                                                                                                                                        aaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACcaca           >  8:153003/1‑148 (MQ=255)                                                                                                                                        aaGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACCACAt          <  5:62264/149‑1 (MQ=255)                                                                                                                                         aGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACCACATa         <  6:127701/149‑1 (MQ=255)                                                                                                                                            ttGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTg                  >  2:210991/1‑137 (MQ=255)                                                                                                                                            ttGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTg                  <  1:210991/137‑1 (MQ=255)                                                                                                                                               ccAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACCACATACTTCAc   >  3:197239/1‑149 (MQ=255)                                                                                                                                                cAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACCACATACTTCAcc  >  6:164230/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                    GTCTAGCCCCATAGCCCCGGCGTACCGGTAGCACCTGACCACCTGATGCAAATGCAGGATTGATAGGCGATCAAGCCGATAAAAAAAGCGCCCCAAGCGGAGCGCCAGAAAATCCACCTAAACCAAAGGAGCAACAAGGTTGCCAAGGTGGAATCACAGAATCGACAACGGGTACTCCACGATCATCCGCACTTCGTCCAGATCCGACTCGAACGCCGTGGCCCGGGTGGTGGCCTGGCGAACCCGCAACGACAGGTCCTTGGCCGCGCCCGTCTGCACCACATACTTCACC  >  NC_002947/4125864‑4126155

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