New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	392448 =	37 (0.180)	19 (0.090)	9/190	25.5	0.31	intergenic (‑96/+47)	RCAP_rcc00363/trmD	hypothetical protein/tRNA (guanine‑N1)‑methyltransferase
	?	NC_014034	2330184 =	48 (0.230)					intergenic (+159/+153)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

GCCATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGTCG.CCTCGGCGCAGCCGAGGCGAAATCACTTGCCGAACTTC.TCCCACAAATCCGGCCGCCGGTCCCGCGTCAAAGCTTC  >  NC_014034/392348‑392548                                                                                                       |                                                                                                            gCCATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTc.c                                                                                                             <  2:813908/101‑1 (MQ=255) gCCATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTc.c                                                                                                             <  2:2805464/101‑1 (MQ=255)  ccATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cg                                                                                                            <  1:1610610/101‑1 (MQ=255)  ccATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cg                                                                                                            <  2:3766840/101‑1 (MQ=255)  ccATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cg                                                                                                            <  2:2793156/101‑1 (MQ=255)    aTCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cggg                                                                                                          <  1:3954191/101‑1 (MQ=255)    aTCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cggg                                                                                                          >  1:1568017/1‑101 (MQ=255)    aTCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cggg                                                                                                          <  1:2849769/101‑1 (MQ=255)     tCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGTGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cgggg                                                                                                         <  1:1962671/101‑1 (MQ=255)     tCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cgggg                                                                                                         >  1:3147335/1‑101 (MQ=255)     tCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cgggg                                                                                                         <  1:4030839/101‑1 (MQ=255)     tCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cgggg                                                                                                         <  2:1545299/101‑1 (MQ=255)     tCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.Cgggg                                                                                                         <  1:1176040/101‑1 (MQ=255)      cGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTACCTCAAATATCCCGGGGGTC.Cggggg                                                                                                        >  1:2547077/1‑101 (MQ=255)         aaaTCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCgg                                                                                                     <  1:4125650/101‑1 (MQ=255)          aaTCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGa                                                                                                    >  2:2659420/1‑101 (MQ=255)           aTCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAg                                                                                                   <  1:3480705/101‑1 (MQ=255)            tCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGc                                                                                                  <  1:3156965/101‑1 (MQ=255)            tCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CCGGGGCGGacc                                                                                                  >  1:4195807/1‑99 (MQ=255)             cccTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGcc                                                                                                 <  2:25883/101‑1 (MQ=255)             cccTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGcc                                                                                                 >  2:845307/1‑101 (MQ=255)               ctcctTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGcccc                                                                                               <  1:1054498/101‑1 (MQ=255)               ctcctTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGcccc                                                                                               >  1:3105347/1‑101 (MQ=255)               ctccgTGTTACCCCGCTACACTACGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATAGCCCGGGGGTC.GCGGGGCGGAGcccc                                                                                               <  2:1202450/101‑1 (MQ=25)                  ctTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg                                                                                        >  2:769280/1‑101 (MQ=255)                  ctTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg                                                                                        >  1:1704039/1‑101 (MQ=255)                  ctTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg                                                                                        >  1:736046/1‑101 (MQ=255)                  ctTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg                                                                                        >  1:2471801/1‑101 (MQ=255)                   ttGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg.c                                                                                      >  2:1240050/1‑101 (MQ=255)                    tGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg.cg                                                                                     >  1:2642247/1‑101 (MQ=255)                     gTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.c...gg.cgg                                                                                    >  1:3517381/1‑101 (MQ=255)                        aCCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.Cggggg                                                                                 >  2:1959911/1‑99 (MQ=255)                            cgcAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.Cgggggggcc                                                                             >  2:156752/1‑95 (MQ=255)                             gcAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.Cggggggccgc                                                                            >  2:2277071/1‑94 (MQ=255)                             gcAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.Cggggggccgc                                                                            >  1:3166499/1‑94 (MQ=255)                               aaGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.Cgggggggcgcgg                                                                          >  2:570466/1‑92 (MQ=255)                                  acctgtggggccAAACCGGGAGGGAAATGGGCGGGCCTTTTCATTTTCCCTAAAATACCCGGGGGGCC.CGGGGGCGGACCCCC.C...GG.CGGGTCG.CCTCGgcg                                                                       <  2:2779980/91‑1 (MQ=12)                                           cccAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGGG.GCCCGgcgcgccgcgggg                                                             >  2:4065/1‑92 (MQ=18)                                            caaaccc.GGAGGAAAAAGGGCAGCCCTTTTCATCTTGCCTAAAATACCCGGGGGGCC.GGGGGGCGGACCCCC.C...GG.CGGGTCG.CCTCGGCGCAGCCGAGGCg                                                            <  2:2736318/96‑1 (MQ=16)                                                     gAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGGG.CCCCGGCGCGGCCGGgggggaaaaaac                                                    >  1:2240591/1‑91 (MQ=18)                                                      aGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGGG.CCCCGGCGCGGCCCCGGCGgaaaacaac                                                   >  2:2111482/1‑95 (MQ=18)                                                                 cAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGGG.CGCCGGCGCCGCCGCGGCGGGAACAACTGCCGAACCtc.t                                       >  2:15990/1‑101 (MQ=14)                                                                           cATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGCG.GCCCGGGGGCGCCCGGGGGGAAACACCTGGCCAACCTC.Tcccccccacc                             >  1:3145008/1‑94 (MQ=2)                                                                              cTTGCCCCAAAAGCCCCGGGGGGCGGGGGGGGGGCCCCCC.C...GG.CGGGTCG.CCTCGGCGCAGCCGAGGCGAAATCACTTGCCGAACTTC.TCCCACAAATCCg                           <  1:1251340/101‑1 (MQ=21)                                                                              attctcgcAAAAATCCCGGGGGGG.GGGGGGGGGCGCCCC.CCCGGG.CGGGTCG.CCTCGGCGCAGCCGAGGCGAAATCACTTGCCGAACTTC.TCCCACAAATc                             <  1:1960037/94‑1 (MQ=16)                                                                                      aaaTATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGCG.CCCCGGGGCCGCCGAGGGGGAAAAAACTGCCGGACTTC.TCCCCCCAAACCCgccccccgc                  >  1:4106576/1‑98 (MQ=9)                                                                                        atatCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGCG.GCCCGGCGCCGGCGGGGGGGAAACACCTTCCGCACTTCTTCCCCCAAACCAGCCCCCCggcc                 >  2:3848414/1‑99 (MQ=2)                                                                                             ccGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGGGGCCCCCGGGGCGCCCGGGGGGAAA.AACTTTCCGGACTTC.TTCCCCCAAACCCCCCGCCGGGCCcccgc           >  1:2598675/1‑100 (MQ=0)                                                                                               gggggCC.GGGGGGCCGCCCCCCGC...GGCCGGGTCG.CCTCGGCGCAGCCGAGGCGAAATCACTTGCCGAACTTC.TCCCACAAATCCGGCCGCCGGTCCCGCGt           <  1:1618841/101‑1 (MQ=25)                                                                                                 gggTC.CGGGGGCGGAGCCCC.C...GG.CGGGGGG.GCCCGGGGCAGGCGGGGGGGAAACACCTTCCGAACTTC.TCCCCCAAAACCCGCCCCCCGGCCcccgcccca       >  1:1635740/1‑96 (MQ=9)                                                                                                       cGGGGGCGGAGCCCC.C...GG.CGGGGCG.CCCCCGCGCCGCCCAGGCGAAAACACCTGCCCAACTTC.TCCCACAAAACCCGCCCCCCGGGCcgcggccaaccctc  >  2:1832246/1‑91 (MQ=16)                                                                                                       |                                                                                                            GCCATCGGAAATCCCTCCTTGTCACCGCGCAAGACTATGCGGCCCAAACC.GGAGGGACAATGGCAGGCCATTTCATCTTGCCTCAAATATCCCGGGGGTC.CGGGGGCGGAGCCCC.C...GG.CGGGTCG.CCTCGGCGCAGCCGAGGCGAAATCACTTGCCGAACTTC.TCCCACAAATCCGGCCGCCGGTCCCGCGTCAAAGCTTC  >  NC_014034/392348‑392548 Base quality scores:  ATCG  < 3 ≤  ATCG  < 24 ≤  ATCG  < 31 ≤  ATCG  < 35 ≤  ATCG  < 41 ≤  ATCG