New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1253895 =	61 (0.250)	27 (0.110)	6/198	25.8	0.37	intergenic (+53/+38)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	1721522 =	32 (0.130)					intergenic (‑417/+29)	RCAP_rcc01588/RCAP_rcc01589	GSCFA family protein/ErfK/YbiS/YcfS/YnhG family protein
Rejected: Position hash score below cutoff.

TTCCAAATAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..GGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTCC  >  NC_014034/1721424‑1721622                                                                                                         |                                                                                                      ttCCAAATAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..ggggg                                                                                                     >  2:4948504/1‑99 (MQ=255)    cAAATAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..gggggcgg                                                                                                  >  2:3827733/1‑96 (MQ=255)     aaaTAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..cgggggggg                                                                                                 >  2:2752698/1‑95 (MQ=255)     aaaTAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..CGGCGgc.gg                                                                                                >  2:3799906/1‑100 (MQ=255)     aaaTAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTCGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..cgggggggg                                                                                                 >  2:2570268/1‑95 (MQ=38)     aaaTAACGCGATGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..ggggggggg                                                                                                 >  2:2242413/1‑95 (MQ=255)      aaTAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..ggggggtgcg                                                                                                >  2:845891/1‑94 (MQ=255)      aaTAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..cgggggggcg                                                                                                >  2:387813/1‑94 (MQ=255)      aaTAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..cggggctggg                                                                                                >  2:3143570/1‑94 (MQ=255)        tAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..gggggggtcgcc                                                                                              >  2:4957594/1‑92 (MQ=255)                     gCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCCGGGGGCTGC.GCCCCCGGGacccccc                                                                                  >  2:3368219/1‑101 (MQ=21)                               cgccgttgtttTTTTTTGGCCCGC.TCGCGGGGGGCTTT.CCGCCTCGGCTGCGCC.GCGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGAtct                                                                         <  2:3349831/93‑1 (MQ=255)                                gCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCCGGGGGCTGC.GCCCCCGGAccccccccccaactctca                                                                       >  2:786842/1‑91 (MQ=18)                                  ccttgtttTTTTTTGGCCCGG.TC.CCTTTGGGGTT.TCCCCCCGGGCGCCCCGGGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAg                                                                      <  1:2267532/96‑1 (MQ=255)                                   tttttttTTTTGTGG.CGGG.TCGCTTGGGGGTTT.CCGCCCCGCCTGCGCC.GGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGAt                                                                    <  2:3651932/97‑1 (MQ=255)                                      ttttTTTTTGGG.CCGG.TCGCTTTGGGGTTC.CCCCCGCGGCGGCGCC.GGGCCGCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCAc                                                                 <  2:2542221/100‑1 (MQ=255)                                       tttTTTTTTGG.GCGGCTCGCCGTGGGGTTC.CCCCCTGGGCTCCCCC.GGGGCGCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCAc                                                                 <  1:2712723/101‑1 (MQ=255)                                       tttTTTTTGGG.CCGG.TCGCTTGGGGGTTT.CCCCCCCGGCCGCGCC.GAGGCGCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCAcc                                                                <  2:1510533/101‑1 (MQ=255)                                       tttTTTTTGGG.CCGG.CCGCCTGGGGGTTT.CCCCCGCGGCGCCGCC.GGGCCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCAcc                                                                <  1:1040009/101‑1 (MQ=255)                                       tttATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCCGGGGGGGGCGGCCCCCGGCCCCCCCCCGCAGAACTCCGATAAc                                                                 >  2:4955203/1‑101 (MQ=18)                                          ttttgggg.CGGG.TCGCTTGGGGGTTT.CCCCCCCGGCCGCCCC.GGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTg                                                             <  1:3127593/95‑1 (MQ=255)                                                gg.CGGG.TCCGCTGGGGGCTT.CCCCCCCGGCGGCCCC.GAGCCGCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGc                                                       <  1:2293005/101‑1 (MQ=255)                                                gg.CCGG.TCGCTGGGGGGTTT.CCGCCGCGCCGGCGCC.GAGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGc                                                       <  2:1192935/101‑1 (MQ=255)                                                      cgggctcTTGGGGTTTCTCCCCGCGGCGCCGCC.GAGCCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTg                                                    <  1:707492/95‑1 (MQ=255)                                                         cgcttgggggATT.CCGCCCCGCCCGCGCG.GGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGa                                                <  2:2046805/95‑1 (MQ=16)                                                             ttGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCCGGGGGGCGC.GCCCCCGGGCCCCCCCCCGAGAACTCCAATCACCCTGACCTCCGCGCCCAcccg                                            >  2:4948916/1‑99 (MQ=9)                                                                gggtgtgccGCCGCGGCCGCCCC.GCGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGc                                          <  2:1104749/93‑1 (MQ=21)                                                                         cccggggCGGCGCC.GCGCCGCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGAt                                 <  2:4013435/96‑1 (MQ=25)                                                                          ccgcGGCCGCGCC.GGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATa                                <  2:3138965/98‑1 (MQ=255)                                                                              ggCTGCGCC.GAGGCGACCCGCCGGGGGCTGG.GCCCCCCGGCCCCCCCCCCAGATCCCAGATCACCTTGGCCCCCGTGCCGACCGGGCAGAGCGGGTAAAGt                            >  2:3352190/1‑101 (MQ=16)                                                                                cgccgcC.GGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTc                          <  1:4945350/98‑1 (MQ=255)                                                                                 cgcgcgcggggCGCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTc                          <  2:128103/92‑1 (MQ=255)                                                                                  gcgcC.GGGGCCCCCCGCCGGGGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCt                        <  2:2999016/101‑1 (MQ=37)                                                                                             cccccgccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGc              <  2:1195716/91‑1 (MQ=255)                                                                                               cccgccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCAt            <  2:774444/93‑1 (MQ=255)                                                                                                ccgccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCAtt           <  2:3006786/94‑1 (MQ=255)                                                                                                 tctcgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTg          <  1:926606/95‑1 (MQ=255)                                                                                                 cgccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTg          <  2:3476613/95‑1 (MQ=255)                                                                                                  gccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGa         <  2:4742471/96‑1 (MQ=255)                                                                                                  cccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGa         <  1:1550897/96‑1 (MQ=255)                                                                                                   ccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGaa        <  1:4948834/97‑1 (MQ=255)                                                                                                   ccgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGaa        <  1:239417/97‑1 (MQ=255)                                                                                                    cgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAc       <  1:1032057/98‑1 (MQ=255)                                                                                                    cgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAc       <  2:4992106/98‑1 (MQ=255)                                                                                                    cgggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAc       <  2:2103329/98‑1 (MQ=255)                                                                                                     gggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACa      <  2:1313206/99‑1 (MQ=255)                                                                                                     gggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACa      <  2:1358572/99‑1 (MQ=255)                                                                                                      ggggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAg     >  1:3073126/2‑101 (MQ=255)                                                                                                       gggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGt    >  2:680877/1‑101 (MQ=255)                                                                                                        ggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTTGGCATTGAACAGTc   >  1:781003/1‑101 (MQ=255)                                                                                                        ggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTc   <  2:4892743/101‑1 (MQ=255)                                                                                                        ggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTc   <  2:4640100/101‑1 (MQ=255)                                                                                                        ggCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTc   <  1:4087249/101‑1 (MQ=255)                                                                                                         gCTGC.GCCCCCGGCGCCGCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTcc  <  2:2199832/101‑1 (MQ=255)                                                                                                         gCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTcc  <  1:4924314/101‑1 (MQ=255)                                                                                                         gCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTcc  >  1:3911210/1‑101 (MQ=255)                                                                                                         |                                                                                                      TTCCAAATAACGCGCTGCGGGCCTCCCTCCCGCAGCGCTTTATTTTTGG.CCGG.TCGCCTTGGGGATT.TCGCCTCGGCTGCGCC.GAGGCGACCCGCC..GGGCTGC.GCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAACAGTCC  >  NC_014034/1721424‑1721622 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG