New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5564019 =	49 (0.870)	3 (0.060)	3/246	NT	6.0%	coding (228/1302 nt)	hflX	GTPase HflX
	?	NC_002947	5564079 =	48 (0.890)					coding (168/1302 nt)	hflX	GTPase HflX

CGGTACGGTCGAGCACACGACACTCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTCCAAGTGAACGAGCAACGCCCGCTCAC  >  NC_002947/5563931‑5564221                                                                                                                                                     |                                                                                                                                                cGGTACGGTCGAGCACACGACACTCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTAt                                                                                                                                                 >  3:83249/1‑149 (MQ=255)       ggagtttcaggagttggcattgtcggccggtgccgacatcgtctcgctggtcacggtgacaaggcatcagccttccgccaaaTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCg                                                                                                                                           >  2:26104‑M1/83‑149 (MQ=255)              cacaCGACACTCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGTGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCt                                                                                                                                    <  1:5358/149‑1 (MQ=255)                    acacTCGAACACACGTTCAAGGTGGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGcc                                                                                                                              <  8:104603/149‑1 (MQ=255)                      acTCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCt‑t                                                                                                                           <  5:317092/149‑1 (MQ=255)                        tCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGcc                                                                                                                              <  4:170271/145‑1 (MQ=255)                        tCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGcc                                                                                                                              >  3:170271/1‑145 (MQ=255)                        tCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGt                                                                                                                         >  2:9162/1‑149 (MQ=255)                          gAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTc                                                                                                                        <  3:81636/148‑1 (MQ=255)                              acacGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGt                                                                                                                   >  6:118103/1‑149 (MQ=255)                                  gTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGAc                                                                                                                >  3:308409/1‑148 (MQ=255)                                              gcTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATg                                                                                                   <  5:118103/149‑1 (MQ=255)                                                  cTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCCTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCg                                                                                                <  2:322903/148‑1 (MQ=255)                                                     aCTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCAc                                                                                            >  2:227127/1‑149 (MQ=255)                                                     aCTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCAc                                                                                            >  2:215473/1‑149 (MQ=255)                                                      cTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCAcc                                                                                           <  6:146671/149‑1 (MQ=255)                                                         ggCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCgg                                                                                         <  1:9162/148‑1 (MQ=255)                                                            gTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGa                                                                                     <  4:125362/149‑1 (MQ=255)                                                             tGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCGTGCCACTGCCAATGAGGTATTTGGCGGAAGGCTGAGGCCT‑TGTCACCGTGACCAGGGAGACGATGTCGTCACCGGCCGa                                                                                     >  8:120675/1‑148 (MQ=255)                                                                gggTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAAt                                                                                 <  4:308409/149‑1 (MQ=255)                                                                   tgtgATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGc                                                                               >  4:332254/1‑148 (MQ=255)                                                                    gtgATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGcc                                                                              >  4:343440/1‑148 (MQ=255)                                                                       aTTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAAc                                                                           <  2:281344/148‑1 (MQ=255)                                                                       aTTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACt                                                                          >  2:130041/1‑149 (MQ=255)                                                                       aTTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGATGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACt                                                                          >  4:67311/1‑149 (MQ=255)                                                                        ttGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTc                                                                         >  6:204572/1‑149 (MQ=255)                                                                         tGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTcc                                                                        >  3:104211/1‑149 (MQ=255)                                                                           aaaaTCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCt                                                                       <  1:130041/148‑1 (MQ=255)                                                                                  cgccaaatacctgattggcagtggcaaggtcgaagagctgcacgacctggtccatgccgaacaggtaTTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTcc                                                               >  2:26104‑M2/68‑149 (MQ=255)                                                                                  ccAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTcc                                                               >  7:257836/1‑149 (MQ=255)                                                                                      gTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCg                                                           <  8:257836/149‑1 (MQ=255)                                                                                       tCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCgg                                                          >  6:98297/1‑149 (MQ=255)                                                                                       tCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCgg                                                          <  5:204572/149‑1 (MQ=255)                                                                                          acctgattggcagtggcaaggtcgaagagctgcacgacctggtccatgccgaacaggtaTTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTc                                                       >  8:108672‑M2/60‑149 (MQ=255)                                                                                           CCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCt                                                      >  3:332254‑M1/1‑149 (MQ=255)                                                                                              GTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCg                                                   <  1:271938‑M1/149‑1 (MQ=255)                                                                                                        gACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGc                                                            >  1:208840/1‑130 (MQ=255)                                                                                                        gACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCa                                          <  1:215473/148‑1 (MQ=255)                                                                                                        gACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAg                                         <  8:262052/149‑1 (MQ=255)                                                                                                        gACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAg                                         <  3:343440/149‑1 (MQ=255)                                                                                                        gACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATACCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCa                                          <  7:42750/148‑1 (MQ=255)                                                                                                        gACCAGGGCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGc                                                            <  2:208840/130‑1 (MQ=255)                                                                                                          caaggtcgaagagctgcacgacctggtccatgccgaacaggtaTTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAggg                                       <  7:108672‑M2/106‑1 (MQ=255)                                                                                                           cAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGt                                      >  5:184163/1‑149 (MQ=255)                                                                                                              gTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCt                                   <  6:184163/149‑1 (MQ=255)                                                                                                              gTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCt                                   <  6:50931/149‑1 (MQ=255)                                                                                                               tCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCt                                   >  4:127702/1‑148 (MQ=255)                                                                                                                 gTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGa                                 <  3:127702/148‑1 (MQ=255)                                                                                                                    cAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCt                              >  4:29000/1‑148 (MQ=255)                                                                                                                      gCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTATGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTc                            >  1:269664/1‑149 (MQ=255)                                                                                                                      gCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTcc                           <  5:98297/149‑1 (MQ=255)                                                                                                                          ttCGACCTTGCCACTGCCAATCAAGTATTTGGCGGAAGGCTGATGCAT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTCCAAGt                       >  7:226659/1‑149 (MQ=255)                                                                                                                             gACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTCCAAGTGaa                    >  5:371304/1‑149 (MQ=255)                                                                                                                             gACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCCACAATGCCAACACCTGAAACTCCTGCGGGTCTTCGCCAGCCTCAGGGTTCTGACCTTCCAAGTGaa                    >  3:168037/1‑149 (MQ=255)                                                                                                                              aCCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCAGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTCCAAGTGAAc                   >  5:40795/1‑149 (MQ=255)                                                                                                                                               caggtaTTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTCCAAGTGAACGAGCAACGCCCGCTcac  <  1:26104‑M2/143‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                CGGTACGGTCGAGCACACGACACTCGAACACACGTTCAAGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCT‑TGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGGGTCTTCGCGCGCCTCAGGGTTCTGACCTTCCAAGTGAACGAGCAACGCCCGCTCAC  >  NC_002947/5563931‑5564221

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.