New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	925895 =	199 (0.960)	47 (0.230)	25/196	17.2	0.27	intergenic (+148/+26)	RCAP_rcc00838/glcB	DnaJ domain‑containing protein/malate synthase
	?	NC_014034	1255906 =	52 (0.250)					intergenic (+76/+166)	RCAP_rcc01184/RCAP_rcc01185	CsbD family protein/methyl‑accepting chemotaxis sensory transducer
Rejected: Position hash score below cutoff.

GGACCGGAACCGGGGGCCTTCGG..CT..G.TCTCGGTCCGCCCGAAGAGGGGGGGCGCTGTGGTAC..CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTCCCGAA  >  NC_014034/1255843‑1256006                                                                       |                                                                                                      ggaccggaACCGGGGGCCTTCGGGCCTCCGCTTTCGGTCAGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCAACCCGGGCTATTTCCGcc                                                                         >  2:694836/1‑101 (MQ=2)                         cccccgctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGcgcg                                                 >  1:109536/10‑101 (MQ=17)                         cccccgctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGcgcg                                                 <  2:2429170/92‑1 (MQ=17)                         cccccgctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGcgcg                                                 >  1:3169166/10‑101 (MQ=17)                          ccccgctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCgg                                                >  1:1974942/9‑101 (MQ=17)                           cccgctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGc                                               >  1:973919/8‑101 (MQ=17)                             cgctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCCTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGGtt                                             >  1:3498132/6‑101 (MQ=18)                              gctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCttt                                            >  2:606584/5‑101 (MQ=18)                              cctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCttt                                            <  2:1532806/97‑1 (MQ=18)                               ctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTc                                           <  1:1192617/98‑1 (MQ=18)                               ctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTc                                           <  2:2843341/98‑1 (MQ=18)                               ctttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTc                                           >  1:1481668/4‑101 (MQ=18)                                tttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCa                                          >  2:83680/3‑101 (MQ=18)                                tttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCa                                          <  1:3884891/99‑1 (MQ=18)                                tttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCa                                          >  1:3484318/3‑101 (MQ=18)                                 ttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCAc                                         <  2:795150/100‑1 (MQ=18)                                 ttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCAc                                         >  2:619885/2‑101 (MQ=18)                                 ttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCAc                                         >  2:1653994/2‑101 (MQ=18)                                 ttcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGCCGCGGCTTTCAc                                         >  1:487296/2‑101 (MQ=18)                                  tcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCAcc                                        >  2:248591/1‑101 (MQ=18)                                  tcGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCAcc                                        <  1:3355168/101‑1 (MQ=18)                                   cGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCt                                       >  1:1151652/1‑101 (MQ=18)                                   cGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCt                                       <  2:3362930/101‑1 (MQ=18)                                   cGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCt                                       <  1:1559726/101‑1 (MQ=18)                                   cGGTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCt                                       >  1:4140493/1‑101 (MQ=18)                                    ggTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCtt                                      <  1:2092326/101‑1 (MQ=18)                                    ggTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCtt                                      <  2:4073225/101‑1 (MQ=18)                                    ggTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCtt                                      <  1:2823861/101‑1 (MQ=18)                                    ggTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGAAAATGAACCCGAGGCGCGGCTTTCACCtt                                      >  2:713376/1‑101 (MQ=17)                                     gTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTg                                     <  2:410544/101‑1 (MQ=18)                                     gTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTg                                     >  1:2408705/1‑101 (MQ=18)                                     gTCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTg                                     >  2:3639583/1‑101 (MQ=18)                                      tCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTgg                                    >  2:3226681/1‑101 (MQ=18)                                      tCCGCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTgg                                    >  2:2761157/1‑101 (MQ=18)                                         gCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGcc                                 <  1:2211676/101‑1 (MQ=18)                                         gCCCGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGcc                                 >  2:2895051/1‑101 (MQ=18)                                          cccGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCa                                >  1:1365399/1‑101 (MQ=18)                                          cccGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCa                                <  1:1817064/101‑1 (MQ=18)                                          cccGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCa                                >  2:4091236/1‑101 (MQ=18)                                          cccGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCCTGGGCCa                                >  2:3925807/1‑101 (MQ=18)                                           ccGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCaa                               <  2:3542341/101‑1 (MQ=18)                                           ccGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCaa                               <  1:2210259/101‑1 (MQ=18)                                            cGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGGAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCaaa                              >  1:995546/1‑101 (MQ=17)                                            cGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGNTTTCACCTTGGGCCaaa                              >  2:674688/1‑101 (MQ=17)                                            cGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCTaaa                              <  2:3583557/101‑1 (MQ=18)                                            cGAAGAGGGGGGGCGCTGCCCCCCGTCCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCaaa                              <  1:2372339/101‑1 (MQ=18)                                                            tgccccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.gggggggggg             >  2:4138854/11‑101 (MQ=255)                                                            cgccccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.gggggggggg             <  2:1553139/91‑1 (MQ=255)                                                             gccccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCC.GGGGGGGGGGa            <  2:612961/92‑1 (MQ=21)                                                             gccccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGa            >  1:3362954/10‑101 (MQ=255)                                                             gccccccggcccTGGGGGGCTCCCCCCGGAATATTTCCGCCAAGGGGGAATGAACCCGGGGCGGGGCTTTCCCCTTGGGCCAAATAACCC.GGGGGGGGGGa            <  2:3782438/92‑1 (MQ=255)                                                              cgatctgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCC.GGGGGGGGGGaa           <  2:265905/93‑1 (MQ=255)                                                              ccccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGaa           >  2:3311095/9‑101 (MQ=255)                                                              ccccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGaa           <  1:4084269/93‑1 (MQ=255)                                                               cccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAAc          >  1:2583331/8‑101 (MQ=255)                                                               cccccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAAc          >  1:330613/8‑101 (MQ=255)                                                                 cccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGGACtt        >  2:3420813/6‑101 (MQ=255)                                                                 cccgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAACtt        >  1:3244896/6‑101 (MQ=255)                                                                  gc..cccGGCGGGCCCCCCCCCGGGATATTTCCCCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTccc     <  1:1654109/100‑1 (MQ=21)                                                                   cgtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTcc      <  1:4055899/98‑1 (MQ=255)                                                                    gtcccTGCGGGCCCCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTccc     <  1:857835/99‑1 (MQ=255)                                                                    gtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGaaagatcg     >  1:265950/3‑95 (MQ=255)                                                                    gtcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGGACTTccc     >  2:3091372/3‑101 (MQ=255)                                                                    gtcccTGCCGGACCCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGGAACTTcc      <  2:1974816/99‑1 (MQ=18)                                                                     tcccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTCCCg    >  2:309200/2‑101 (MQ=255)                                                                      cccTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTCCCga   <  2:3032521/101‑1 (MQ=255)                                                                       ccTGCGGGCCCCCCCCCGGGATATTTCCCCCAAGGGGAAATGAACCCGGGGCGGGGCTTTCCCCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTCCCgaa  <  1:3853386/101‑1 (MQ=25)                                                                       |                                                                                                      GGACCGGAACCGGGGGCCTTCGG..CT..G.TCTCGGTCCGCCCGAAGAGGGGGGGCGCTGTGGTAC..CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC.GGGGGGGGGGAACTTCCCGAA  >  NC_014034/1255843‑1256006 Base quality scores:  ATCG  < 3 ≤  ATCG  < 17 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG