New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	974316 =	24 (0.060)	127 (0.300)	13/182	31.3	0.75	intergenic (+196/+63)	RCAP_rcc00884/RCAP_rcc00885	hypothetical protein/hypothetical protein
	?	NC_014034	= 1253890	62 (0.140)					intergenic (+48/+43)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
Rejected: Position hash score below cutoff.

GCAGACGGGCGGGATCCGGCATGGC.CG.TGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCC.C.GGGG...T...GTGCG.....GAAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCCGCCGCAACGGCCGGTTCTCAGCCGAACAGGATCAGGTTCGAGCGCGCGATCACCC  >  NC_014034/974239‑974416                                                                                             |                                                                                                     gCAGCCGGGCGGGATGCGCAATGCC.CGCTGCGCAGCGGCTTGTTTACACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCt                                                                                    <  2:9111592/101‑1 (MQ=0)   agccgggcgggATCCGGCATGGC.CGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATA.CC.C.GGGG...G...GTCCGGGGGCGGAGCCCCCGGCGGGTCGCCTCg                                                                                  <  2:6849956/98‑1 (MQ=9)          cgggACCCGGCATGGCGTC.TGGGCGGCGGCTTTTTTTCTCCTTGCGACAAATACCC.CGGGGG...TCC.GGGGGC....GGACCCCCCGGCGGGTCGCCTCGGCGACAg                                                                           <  1:8484935/101‑1 (MQ=2)             gATCCGGCATGGC.CGCTGCGCAGCGGCTTGTTTTCCCCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCg                                                                        <  1:2806748/101‑1 (MQ=9)               tCCGTCATGGC.CGCTGCACAGCGGCTTGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAg                                                                      <  2:1611338/101‑1 (MQ=2)               tCCGGCATGGC.CGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAg                                                                      <  2:2486427/101‑1 (MQ=11)                 cGGCATGGC.CGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCCGG.GGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGc                                                                    <  2:3760642/101‑1 (MQ=2)                 cGGCATGGC.CGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGc                                                                    <  1:1641537/101‑1 (MQ=11)                     aTGGC.CGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGaaa                                                                <  2:3424245/101‑1 (MQ=11)                         gccgctGCGCAGCGGCTTGTATTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACTGCCGAGGCGCACTAc                                                             <  1:8834430/96‑1 (MQ=2)                            gctGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATAcccc                                                          <  2:4958861/99‑1 (MQ=11)                                cgcACCGGCTTGTTTCCCCCTGGCGACAAATATCCGG.GGGG...TCG.GGGGGC....GGACCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCcggcc                                                      <  2:5815710/101‑1 (MQ=2)                                      ggCTTGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCGGCCGCAACg                                                <  2:7252201/101‑1 (MQ=11)                                        tttGTTTCCGCCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCGGCCGCAACGGc                                              <  1:6945617/100‑1 (MQ=2)                                         ttGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGGCGCCGCCGCGGCCGCCGCGGGGGAAAACACCCGCCCCCACCGcc                                             >  2:6319615/1‑101 (MQ=0)                                          tGTTTTCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGGGGGCGCGGCGGCAGCCGCGGGGGAATAACCCCCCCCCACCGGCCg                                            >  2:6888089/1‑101 (MQ=0)                                              ttCACCTTGCGACAAATATCC.CGGGGG...TCCGGTGGC.....GGAGCCCCCGGCGGGGGGCGCCGGCGCCAGACGGGGCGGAAGAAACCGGCCGCAACGGCCggggg                                        >  1:1533918/1‑98 (MQ=0)                                               tCACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGGGGCCTCGGCGGCCGCCGCGGGGGAAGAACCCCGCCGCCACCGCCGGGtct                                       >  1:1807081/1‑101 (MQ=2)                                               tCACCTTGCGACAAATAGCC.C.GGGGGGCC...GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCGGCCGCAACGGCCGGTtct                                       <  1:5294916/101‑1 (MQ=2)                                                cACCTTGCGACAAATATCC.G.GGGGGCCC...GGGGGC....GGAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCGGCCGCAACGGCCGGTtctc                                      <  2:1469899/101‑1 (MQ=2)                                                cACCTTGCGACAAATATCC.CGGGGG...TCC.GGGGGC....GGAGCCCCCGGCGGGGCGGCCCGGCGACCGCCGCGGCGGAAAACCCCGGCCGCCCCGGcacggtcgc                                      >  2:8178717/1‑93 (MQ=2)                                                  ccTTGCGACAAATATCC.CGGGGG...TCCGGGGGC.....GGAGCCCCCGGCGGGGGGCCTCGGGGGCAGCCGCGGCGGAAAAACACCGCCGCCCCAGCCgggcccccc                                    >  2:3614922/1‑94 (MQ=2)                                                                          gggccgggggCG.....GGACCCCCGGGCGGGTCGCCTCGGCGACATCCGAGGCGAAATACCCCGGCCGCAACGGCCGGTTCTCAGCCGAACAGGATCAGGTTCGa                <  2:6595685/92‑1 (MQ=37)                                                                                  ggCG.....GGACCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCGGCCGCAACGGCCGGTTCTCAGCCGAACAGGATCAGGTTCGAGCGCGCGa        <  2:8487879/100‑1 (MQ=255)                                                                                      gggccggaGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCGGCCGCAACGGCCGGTTCTCAGCCGAACAGGATCAGGTTCGAGcgcgcg         <  2:8050750/94‑1 (MQ=255)                                                                                            gaGCCCCCGGCGGGGCGCCTCGGCGGCAGCCGAGGGGAAAAAACCCCGCCGCAACGGCCGGGTCTCAGCCGGACAGGATCAGGGTCGAGCGCGCGATCAcc   >  2:1388170/2‑101 (MQ=255)                                                                                             aGCCCCCGGCGGGTCGCCCCCGCGACAGCCCAGGGGAAAAAACCCCGCCGCCACGGGCGGGTCTCAGCCCAACAAGATCCAGGTCGAGCGGGCGGTCAccc  >  2:336873/1‑101 (MQ=255)                                                                                             |                                                                                                     GCAGACGGGCGGGATCCGGCATGGC.CG.TGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCC.C.GGGG...T...GTGCG.....GAAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCCGCCGCAACGGCCGGTTCTCAGCCGAACAGGATCAGGTTCGAGCGCGCGATCACCC  >  NC_014034/974239‑974416 Base quality scores:  ATCG  < 3 ≤  ATCG  < 8 ≤  ATCG  < 20 ≤  ATCG  < 31 ≤  ATCG  < 41 ≤  ATCG