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

CTGCAGCTTGCCTTCATGGGTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGG  >  NC_002947/5563875‑5564165                                                                                                                                                    |                                                                                                                                                   cTGCAGCTTGCCTTCATGGGTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCt                                                                                                                                                >  1:344318/1‑149 (MQ=255)   gCAGCTTGCCTTCATGGGTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGt                                                                                                                                              >  6:280633/1‑149 (MQ=255)     gtgagcgggcgttgctcgttcacttggaaggtcagaaccctgaggcgcgcgaagacccgcaggagtttcaggagttggcattgtcggccggtgccgacatcgtctcgctggtcacggtgacaaggcatcagccttccgccaaaTACCTg                                                                                                                                               <  1:26104‑M1/6‑1 (MQ=255)              tCATGGGTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGAc                                                                                                                                   >  7:104603/1‑149 (MQ=255)                aTGGGTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCa                                                                                                                                 <  2:150030/149‑1 (MQ=255)                    gTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTc                                                                                                                             >  4:81636/1‑149 (MQ=255)                       cgcgCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTg                                                                                                                          <  2:344318/149‑1 (MQ=255)                        gcgcCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGc                                                                                                                         <  4:198984/149‑1 (MQ=255)                          gccctgggggCGAATATCTCGAGGATCAGCCGGGTCGGGGCGAGCACACGACACTCTCTTTCACCCGTTAACTCAAGGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTg                                                                                                                          <  1:292537/142‑1 (MQ=255)                          gcCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAgg                                                                                                                               <  5:350124/141‑1 (MQ=255)                          gcCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAgg                                                                                                                               >  6:350124/1‑141 (MQ=255)                          gcCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAg                                                                                                                       >  1:322903/1‑149 (MQ=255)                               ttGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCtt                                                                                                                  <  5:280633/149‑1 (MQ=255)                                     gAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCt                                                                                                            >  1:62835/1‑149 (MQ=255)                                          ccctgaggcgcgcgaagacccgcaggagtttcaggagttggcattgtcggccggtgccgacatcgtctcgctggtcacggtgacaaggcatcagccttccgccaaaTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTg                                                                                                          <  7:108672‑M1/43‑1 (MQ=255)                                            tCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACt                                                                                                     >  5:50931/1‑149 (MQ=255)                                             cGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAg                                                                                                                       <  5:233430/130‑1 (MQ=255)                                             cGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAg                                                                                                                       >  6:233430/1‑130 (MQ=255)                                              gAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGc                                                                                                   >  7:171138/1‑149 (MQ=255)                                                 gATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCaa                                                                                                <  1:56634/149‑1 (MQ=255)                                                  aTCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAAt                                                                                               >  7:262052/1‑149 (MQ=255)                                                   tCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATc                                                                                              <  2:62835/149‑1 (MQ=255)                                                     aGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAg                                                                                            >  3:125362/1‑149 (MQ=255)                                                        ccGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTa                                                                                         >  5:146671/1‑149 (MQ=255)                                                         cGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTAt                                                                                        >  3:83249/1‑149 (MQ=255)                                                          gacccgcaggagtttcaggagttggcattgtcggccggtgccgacatcgtctcgctggtcacggtgacaaggcatcagccttccgccaaaTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGt                                                                                          >  8:108672‑M1/91‑149 (MQ=255)                                                                  ggagtttcaggagttggcattgtcggccggtgccgacatcgtctcgctggtcacggtgacaaggcatcagccttccgccaaaTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCg                                                                                  >  2:26104‑M1/83‑149 (MQ=255)                                                                      cacaCGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGTGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCt                                                                           <  1:5358/149‑1 (MQ=255)                                                                            aca‑‑cTCGAACACACGTTCA‑AGGTGGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGcc                                                                     <  8:104603/149‑1 (MQ=255)                                                                              a‑‑cTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCtt                                                                   <  5:317092/149‑1 (MQ=255)                                                                                  tCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGcc                                                                     <  4:170271/145‑1 (MQ=255)                                                                                  tCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGcc                                                                     >  3:170271/1‑145 (MQ=255)                                                                                  tCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGt                                                                 >  2:9162/1‑149 (MQ=255)                                                                                    gAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTc                                                                <  3:81636/148‑1 (MQ=255)                                                                                        acacGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGt                                                           >  6:118103/1‑149 (MQ=255)                                                                                            gTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGAc                                                        >  3:308409/1‑148 (MQ=255)                                                                                                         gcTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATg                                           <  5:118103/149‑1 (MQ=255)                                                                                                             cTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCCTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCg                                        <  2:322903/148‑1 (MQ=255)                                                                                                                aCTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCAc                                    >  2:227127/1‑149 (MQ=255)                                                                                                                aCTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCAc                                    >  2:215473/1‑149 (MQ=255)                                                                                                                 cTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCAcc                                   <  6:146671/149‑1 (MQ=255)                                                                                                                    ggCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCgg                                 <  1:9162/148‑1 (MQ=255)                                                                                                                       gTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGa                             <  4:125362/149‑1 (MQ=255)                                                                                                                        tGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCGTGCCACTGCCAATGAGGTATTTGGCGGAAGGCTGAGGCCTTGTCACCGTGACCAGGGAGACGATGTCGTCACCGGCCGa                             >  8:120675/1‑148 (MQ=255)                                                                                                                           gggTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAAt                         <  4:308409/149‑1 (MQ=255)                                                                                                                              tgtgATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGc                       >  4:332254/1‑148 (MQ=255)                                                                                                                               gtgATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGcc                      >  4:343440/1‑148 (MQ=255)                                                                                                                                  aTTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAAc                   <  2:281344/148‑1 (MQ=255)                                                                                                                                  aTTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACt                  >  2:130041/1‑149 (MQ=255)                                                                                                                                  aTTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGATGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACt                  >  4:67311/1‑149 (MQ=255)                                                                                                                                   ttGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTc                 >  6:204572/1‑149 (MQ=255)                                                                                                                                    tGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTcc                >  3:104211/1‑149 (MQ=255)                                                                                                                                      aaaaTCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCt               <  1:130041/148‑1 (MQ=255)                                                                                                                                             ccAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTcc       >  7:257836/1‑149 (MQ=255)                                                                                                                                                 gTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCg   <  8:257836/149‑1 (MQ=255)                                                                                                                                                  tCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCgg  <  5:204572/149‑1 (MQ=255)                                                                                                                                                  tCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCgg  >  6:98297/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                   CTGCAGCTTGCCTTCATGGGTACGCGCCCGTTGGGCGAAGATATCGAGGATCAGCCCGGTACGGTCGAGCACACGACA‑‑CTCGAACACACGTTCA‑AGGTTGCGCTCCTGACTGGGCGTGAGGGTGTGATTGAAAATCACCAGGTCTACCTGTTCGGCATGGACCAGGTCGTGCAGCTCTTCGACCTTGCCACTGCCAATCAGGTATTTGGCGGAAGGCTGATGCCTTGTCACCGTGACCAGCGAGACGATGTCGGCACCGGCCGACAATGCCAACTCCTGAAACTCCTGCGG  >  NC_002947/5563875‑5564165

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.