New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 1311725	40 (0.760)	8 (0.170)	8/220	NT	20.1%	intergenic (‑187/+91)	PP_1144/rapA	membrane protein/RNA polymerase‑associated protein RapA
	?	NC_002947	= 1311784	28 (0.600)					intergenic (‑246/+32)	PP_1144/rapA	membrane protein/RNA polymerase‑associated protein RapA

ATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACACTTGGG  >  NC_002947/1311637‑1311933                                                                                                                                                    |                                                                                                                                                      aatgctggagaaggccgccctgcgcctggaagccattcgcgtgctggtggctggctagcgcaggccccgcgcccctTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGc                                                                                                                                                     >  1:156012‑M1/77‑150 (MQ=255)  tGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcc                                                                                                                                                    >  2:738657‑M2/1‑147 (MQ=255)     ctggagaaggccgccctgcgcctggaagccattcgcgtgctggtggctggctagcgcaggccccgcgcccctTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGc                                                                                                                                                 >  1:1249679‑M1/73‑150 (MQ=255)       ggagaaggccgccctgcgcctggaagccattcgcgtgctggtggctggctagcgcaggccccgcgcccccTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTc                                                                                                                                               >  2:287663‑M1/71‑150 (MQ=255)        aaTGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcc                                                                                                                                              <  1:216486‑M2/150‑10 (MQ=255)        aaTGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcc                                                                                                                                              <  1:633413‑M2/150‑10 (MQ=255)                cgccctgcgcctggaagccattcgcgtgctggtggctggctagcgcaggccccgcgcccctTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTg                                                                                                                                                      <  1:107942‑M1/73‑1 (MQ=255)                cgccctgcgcctggaagccattcgcgtgctggtggctggctagcgcaggccccgcgcccctTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTg                                                                                                                                                      >  2:107942‑M1/62‑134 (MQ=255)                cTACGATTTGGTTATACTTCCAATCACGGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGANGCCACCNGCTTTGCCGGTGNTCGCGGGCGTgcccgctcccaccagct                                                                                                                                      >  1:1118927‑M2/1‑133 (MQ=255)                 tACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAgggg                                                                                                                                     >  2:746980/1‑150 (MQ=255)                    gATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGGCCGCGAAAGATCCACTGCGGGGGATGCCACCGGCTTTGCCGGGGTTCGCGGGCGCGCCCGCCCCCACAAGGGgcgc                                                                                                                                  >  2:1359185/1‑150 (MQ=255)                              taACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTgcg                                                                                                                        >  1:758432/1‑150 (MQ=255)                                    cAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagcc                                                                                                                  >  2:42165/1‑150 (MQ=255)                                    cAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagcc                                                                                                                  >  2:42091/1‑150 (MQ=255)                                      aTCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagccag                                                                                                                <  2:93339/150‑1 (MQ=255)                                        cGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGAGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTagccagcc                                                                                                              <  2:498108/150‑1 (MQ=255)                                               aGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGCGCCCGCGCCCCATAAACTGCGTTGGATCGCACCTCCGTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCa                                                                                                       >  2:1230475/1‑150 (MQ=255)                                                ggAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCAc                                                                                                      <  2:612437/150‑1 (MQ=255)                                                      aaTTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGTTTTTTCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAAt                                                                                                >  1:530773/1‑150 (MQ=255)                                                             ggCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaaggggcgcggggccccaaatttattcctcactgcgattggagttataac                                                                                         <  2:452334‑M2/150‑63 (MQ=255)                                                              gCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCa                                                                                        <  2:175506/150‑1 (MQ=255)                                                              gCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCa                                                                                        >  1:572402/1‑150 (MQ=255)                                                                ccTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAgg                                                                                      >  1:703839/1‑150 (MQ=255)                                                                 cTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGgc                                                                                     >  1:580424/1‑150 (MQ=255)                                                                         ttCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtag                                                                             <  2:4432‑M2/150‑75 (MQ=255)                                                                             TGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCt                                                                         <  2:88941‑M1/150‑1 (MQ=255)                                                                               tgGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcgcgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatca                                                                       <  1:407944‑M2/150‑81 (MQ=255)                                                                                   cGCGGGCCACCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCa                                                                   >  1:134756‑M1/2‑150 (MQ=255)                                                                                        GCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCAtt                                                              >  1:1264762‑M1/1‑150 (MQ=255)                                                                                          gAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGc                                                            >  2:1162644/1‑150 (MQ=255)                                                                                              ccGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcgtcactgcgattggagttataaccaaatcgtagaaatcattgtgccattagtca                                                        <  1:1361353‑M2/150‑96 (MQ=255)                                                                                              ccGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAgg                                                        >  2:8534/1‑150 (MQ=255)                                                                                                     gCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTgcccgctcccacaggaaggcattagggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatcattgtgccattagtcaggaaggc                                                 >  1:4432‑M2/1‑48 (MQ=255)                                                                                                      cATCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCTCgcccgctcccacaggaaggcattagggccccaaatttatt                                                                                                               <  1:606000‑M2/87‑41 (MQ=255)                                                                                                      cATCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCTCgcccgctcccacaggaaggcattagggccccaaatttatt                                                                                                               >  2:606000‑M2/1‑47 (MQ=255)                                                                                                       aTCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTcg                                               >  1:761827/1‑150 (MQ=255)                                                                                                        tCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTcgc                                              >  1:1208960/1‑150 (MQ=255)                                                                                                                 gTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTgc                                     >  2:208764/1‑150 (MQ=255)                                                                                                                           ccGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGCCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTc                           >  1:1246788/1‑150 (MQ=255)                                                                                                                              gCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGAt                        <  2:1127919/150‑1 (MQ=255)                                                                                                                                 ttGCCGGTGTACGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTCGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTTCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGAtctc                     <  1:1359185/150‑1 (MQ=255)                                                                                                                                  tGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCg                    <  1:1230475/150‑1 (MQ=255)                                                                                                                                   gCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGc                   >  1:788305/1‑150 (MQ=255)                                                                                                                                    ccGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCt                  <  1:208764/150‑1 (MQ=255)                                                                                                                                    ccGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCt                  <  2:761827/150‑1 (MQ=255)                                                                                                                                      ggTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGt                <  1:42091/150‑1 (MQ=255)                                                                                                                                      ggTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGt                <  1:42165/150‑1 (MQ=255)                                                                                                                                         gtTCGCGGGCGTgcccgctcccacaaggggcgcggggccccaaatttattcctcactgcgattggagttataaccaaatcgtagaaatcattgtgccattagtcaggaaggcttaagtactccttcctatactgcctctggacagtctgc             >  1:452334‑M2/1‑12 (MQ=255)                                                                                                                                              cgGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGcaca        <  2:572402/150‑1 (MQ=255)                                                                                                                                                 gCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACACtt     <  2:1208960/150‑1 (MQ=255)                                                                                                                                                   gTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACACTTgg   <  1:68207/150‑1 (MQ=255)                                                                                                                                                   gTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACACTTgg   >  2:686657/1‑150 (MQ=255)                                                                                                                                                    tGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACACTTggg  <  1:8534/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                      ATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCTTCGCGCCGCTTGCGCAGGGCGTCGATTTCGCTGTCACGCACACTTGGG  >  NC_002947/1311637‑1311933

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.