New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1732870 =	21 (0.130)	28 (0.170)	13/154	19.3	0.49	intergenic (‑294/‑109)	RCAP_rcc01601/tgt	FeS assembly SUF system protein/queuine tRNA‑ribosyltransferase
	?	NC_014034	= 2474937	37 (0.170)					intergenic (‑100/+26)	RCAP_rcc02301/engA	hypothetical protein/GTP‑binding protein EngA
Rejected: Position hash score below cutoff.

AACAGGCAAGGGCCCCG.CTTTTCCTAGGC.AAAATACGCCCTTCTTTCTTTTCGGGGGGGCGGGGGGTGAAG...CCCCCC...GT...C....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCAAAGG  >  NC_014034/1732790‑1732970                                                                                                |                                                                                                         aaCAGGCAAGGCCCCCG.TTTTTCCTAGGC.AAAATCCGCCCTTCTTTCTTTTCGGGGGGGCGGGGGGTGAAC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGa                                                                                       <  2:2401650/101‑1 (MQ=18)    ggggcaGGGCCCCG.TTTTTCCCTAGC.AAAAACCCCCCTTTTTTTTTTTGGGGGGGGGGGGGGGGGAAG...CCCCCC...CG...CGGGTCG..CCTCGGGCTTGCCCGAgg                                                                                     <  1:3802626/96‑1 (MQ=2)    aggccgggcccccG.CTTTCCATGGAA.AAAATGC.CCCTTTTTTTTTTGCGGGGGGGGGGGGGGATAAA...CCCCCC...GG...CGGGTCG..CCTCGGGCTTGCCCGAGGc                                                                                    <  2:2330100/92‑1 (MQ=2)        aaGGGCCCCG.CTTTTCCTAGGC.AAAATACGCCTTTTTTTCTTTGGGGGGGGGCGGGGGGGGAAC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.Gaaa                                                                               <  2:970752/101‑1 (MQ=9)        aaGGGCCCCG.CTTTTCCTAGGC.AAAATACGCCCTTCTTTCTTTTCGGGGGGGTGGGGGGTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.Gaaa                                                                               <  1:3505702/101‑1 (MQ=18)            gCCCCGTCTTTCCCTGGGA.AAAATCCCCCTTTCTTTTTTTGGGGGGGGGGGGGGGGGGACG...CCCCCC...GCGGGT....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCt                                                                            <  2:368073/101‑1 (MQ=2)            gCCCCG.CTTTTCCTAGGC.AAAATACGCCCTTCTTTCTTTGCGGGGGGGGGGGGGGTGAAG...CCCCCC...GCGGGT....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCtt                                                                           <  2:3313039/101‑1 (MQ=18)               ccG.CTTTCCCAAGGA.AAAATCCGCCTTTCTTTCTTTGGGGGGGGGCGGGGGGTGAAG...CCCCCC...GCGGGT....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.ccc                                                                       <  1:1283984/101‑1 (MQ=2)                cccgttttCCTAAGCAAAAATCCCCCTTTTTTTTTTTTGGGGGGGGCGGGGGGTGAAC...CCCCCC...GC...GGGT.CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.cc                                                                        <  2:359166/97‑1 (MQ=2)                cG.CTTTTCCTAGGC.AAAATACCCCCTTCTTTCTTTTCGGGGGGGCGGGGGGTGAAG...CCCCCC...GC...GGGT.CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.cccc                                                                      <  2:1617701/101‑1 (MQ=18)                    ttttCCTAGGC.AAAATACGCCCTTCTTTCTTTTCGGGGGGGCGGGGGGTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCg                                                                   <  2:2785093/101‑1 (MQ=21)                       tCCTAGGC.AAAATCCGCCCTTCTTTCTTTTCGGGGGGGGGGGGGGTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGa                                                                <  1:3103737/101‑1 (MQ=18)                         cTAGGA.AAAATCCGCCCTTTTTTCTTTCGGGGGGGGCGGGGGGTGAAC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGaaa                                                              <  2:329583/101‑1 (MQ=9)                            tac.AAAAAGCGCCGTTTTGTCTTTGGGGGGGGGGGGGGGGGGAAC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAAcc                                                           <  1:1310269/99‑1 (MQ=2)                                   aTACGCCCTTCTTTCTTTTCGGGGGGGCGGGGGGGGAAGGCCCCCCCCG..GG...C....GG..CCCCGGGCTTCCCCGGGGG.GGAACTTT.CCCCCCCGCAAAACCTTCcc                                                      >  2:3522820/1‑101 (MQ=255)                                    tACGCCCTTCTTTCTTTTCGGGGGGGCGGGGGGGGAAGGC.CCCCCCG..GG...G....CG..CCCCCGGCGTGGCCCAGGCGGAAAGCTTCCCCCCCGTGaaacctgccct                                                      >  2:3430024/1‑93 (MQ=255)                                               ttctttTCGGGGGGGCGGGGGGGGGAGAC.CCCCCC...GG...G....GGGCCCCCGGGCTGGCCCGGGGG.GAAAGCTC.CCCCCCCGGAAAAAC.TGCCCGCGCGCGGCGcg                                         >  2:2540037/1‑100 (MQ=255)                                                tttttgggggggggGGGGGGGTGACC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCtt                                        <  1:3167391/94‑1 (MQ=17)                                                   tttCGGGGGGGCGGGGGGTGAGG...CCCCCCGCGGG...T....CG..GCCCAGGCCTGCCCCGGGC.GAAAGAGT.CCCCCCCCGAAAACCCCCCCCCCGGGCGTCGCCTTcc                                     >  2:91638/1‑101 (MQ=255)                                                        ggggggCGGGGGGGGACC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTc                                <  1:341857/101‑1 (MQ=18)                                                          ggggGGGGGGGTGAAC...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCgg                              <  1:3523073/101‑1 (MQ=21)                                                             gCGGGGGGTGAAG...CCCCCCGCGGG...G....CG..CCTCGGGCCTGCCCGAGGC.GAAAGCCT.TCCCCCCTGCAAAACTTGCCCGCGCGCGTCGCTTTTCCTTTCGGccc                           >  2:2788887/1‑101 (MQ=12)                                                              cGGGGGGTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGGGAAAACCTTCCCTCCCCCCGCCCCTTTCCCTTTCGCCCCg                          >  1:4034232/1‑101 (MQ=9)                                                              cGGGGGGTGAAG...CCCCCCGCGGG...G....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCCTCGCTTTCCCTTTCGGCCCg                          >  2:4157530/1‑101 (MQ=21)                                                               ggggggTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCgg                         >  1:3420310/1‑101 (MQ=21)                                                               ggggggTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCgg                         >  2:3048376/1‑101 (MQ=21)                                                               ggggggTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAACTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGccccg                         >  1:3548913/1‑99 (MQ=21)                                                                gggggTGAAG...CCCCCCGCGGG...T....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGgc                        <  2:3477174/101‑1 (MQ=21)                                                                                      ccccgcgggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTCCGGCCCGGCGCTGCTAAAcgc            <  1:2409251/91‑1 (MQ=38)                                                                                         cgcgggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAAcgcgcg         <  1:3181313/94‑1 (MQ=255)                                                                                           cgggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGcc       >  2:3572385/6‑101 (MQ=255)                                                                                           cgggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGcc       >  1:1125441/6‑101 (MQ=255)                                                                                            gggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCa      <  1:751935/97‑1 (MQ=255)                                                                                            gggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCa      >  1:162642/5‑101 (MQ=255)                                                                                            gggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCa      <  1:1470032/97‑1 (MQ=255)                                                                                             ggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGccca     >  2:1481210/4‑99 (MQ=255)                                                                                             ggtcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCaa     <  2:1583532/98‑1 (MQ=255)                                                                                               tcG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCAAAg   <  1:3905345/100‑1 (MQ=255)                                                                                                cG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCAAAgg  >  2:286629/1‑101 (MQ=255)                                                                                                |                                                                                                         AACAGGCAAGGGCCCCG.CTTTTCCTAGGC.AAAATACGCCCTTCTTTCTTTTCGGGGGGGCGGGGGGTGAAG...CCCCCC...GT...C....CG..CCTCGGGCTTGCCCGAGGC.GAAAGCTT.CCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTCGGCCCGGCGCTGCTAAACGCGCGCCAAAGG  >  NC_014034/1732790‑1732970 Base quality scores:  ATCG  < 3 ≤  ATCG  < 8 ≤  ATCG  < 19 ≤  ATCG  < 32 ≤  ATCG  < 40 ≤  ATCG