New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 744809	43 (0.210)	31 (0.150)	13/180	24.6	0.42	intergenic (+194/+18)	idi2/bchO	isopentenyl‑diphosphate delta‑isomerase/magnesium‑chelatase BchO
	?	NC_014034	1732880 =	44 (0.190)					intergenic (‑304/‑99)	RCAP_rcc01601/tgt	FeS assembly SUF system protein/queuine tRNA‑ribosyltransferase
Rejected: Position hash score below cutoff.

CAACAGGCAAGGGCCCCGCTTTTCCT.AGGCAAAATACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCC.....GT...C...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCGAT  >  NC_014034/1732789‑1732980                                                                                                              |                                                                                                         acgcgggCCAGGGCCCCCTTTTTCCTGAGGCAAAATCCCCCTTTTTTTTTTTG.GGGGGGGGGGGGGGGTGAAC...CCCCCC.....GC...GGGTCG.CCTC.GGGCTTGccc                                                                                                     <  2:225427/96‑1 (MQ=2)   aCAGGCAAGGGCCCCGCTTTTCCT.AGGCAAAATCCGCCCTTCTTTCTTTC.CGGGGGGGCGGGGGGTGAAG...CCCCCC.....GCGGGT...CG.CCTC.GGGCTTGCCCG.Ag                                                                                                 <  2:3309517/101‑1 (MQ=18)    cAGGCCAGGGCCCCGCTTTTCCT.AGCCAAAATCCTCCCTTCTTTTCTTG.CGGGTGGGCGGGAGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.Agg                                                                                                <  2:509640/101‑1 (MQ=9)         cgcggCCCCTCTTTTCCA.AGACAAAA.CCCCCCTTTTTTTTTTT.GGGGGGGGGGGGGGGGGCAC...CCCCCCCCGCGGG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.aa                                                                                          <  2:947871/98‑1 (MQ=2)                   ctgttCCT.AGGCAAAATACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTcccccc                                                                               <  1:2116335/98‑1 (MQ=18)                      ttCCT.AGGCAAAATACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTg                                                                            <  1:2103321/101‑1 (MQ=21)                         tagaGGAAAAATCCGCCTTTTTTTCTTTG.GGGGGGGGCGGGGGGTGAAC...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTTCCCG.AGGC.G.AAAGCTTCCCCCCGTGaa                                                                          <  2:4334514/98‑1 (MQ=2)                         ctttggCAAAATTCCCCTTTTTTTTTTTG.CGGGGGGGGGGGGGGTGACC...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGaa                                                                          <  2:3565551/97‑1 (MQ=9)                              gCAAAATACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCt                                                                     <  2:2080889/101‑1 (MQ=21)                                aaaaTACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGGGGAGGC.CCCCCCG....GG...G...CG.CCCCGGGGCTGGCCCC.GGGG.G.AAAGATTCCCCCCCGCAAAACCtt                                                                    >  2:622029/1‑101 (MQ=255)                                 aaaTACTCCCTTCTTTGTTTT.GGGGGGGGGGGGGGTTTAAC...CCCGCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGc                                                                  <  1:1401343/101‑1 (MQ=12)                                 aaaTACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGc                                                                  <  1:1049144/101‑1 (MQ=21)                                   atccGCCCTTCTTTCTTTT.GGGGGGGGCGGGGGGGGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCt                                                                <  2:379879/98‑1 (MQ=17)                                     ccccccTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTgc                                                              <  2:675348/98‑1 (MQ=18)                                      cccccTTTTTTTTTTTGGGGGGGGGGGGGGGGTGACC...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTgc                                                              <  1:291304/99‑1 (MQ=9)                                      cccccTTTTTTTTTTT.GGGGGGGGGGGGGGGGGAAC...CCCCCCCGCG.GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTgc                                                              <  2:1057991/99‑1 (MQ=12)                                      cccccTTCTTTCTTTG.CGGGGGGGGGGGGGGTGAAC...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTgcg                                                             <  1:1281378/99‑1 (MQ=18)                                        cctttctttctTTG.GGGGGGGGCGGGGGGTGAAC...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTgcgcg                                                           <  2:2383413/98‑1 (MQ=17)                                           ttctttctTTT.CGGGGGGGCGGGGGGGGGAGGCCCCCCCC.....GG...G...CGCCCCC.GGCCTCGCCCC.GGGG.G.AAGGCTCCCCCCCCGGAAAACCTTCCCtcccccgg                                                         >  2:2593836/1‑94 (MQ=255)                                               ttcttgT.CGGGGGGGCGGGGGGTGAAC...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCt                                                    <  2:1771566/101‑1 (MQ=18)                                                   ttt.CGGGGGGGCGGGGGGGGAAG...CCCCCCCCG..GG...G...CG.CCCC.GGGCGTGGCCGCGGGG.G.AAACATCCCCCCCCGGAAAACCTT.CCCGCGCGCGGCGCctttc                                                >  2:1344531/1‑99 (MQ=255)                                                         ggggggCGGGGGGTGAAG...CCCCCCGCG..GG...G...CG.CCTC.CGGCTTGCCCG.GGGCGG.AAACTTTCCCCCCGCGAAAACC.TGCCCTCGCGCGGCGGTTTCCCCTTc                                           >  2:2010236/1‑101 (MQ=255)                                                            gggCGGGGGGTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGc                                       <  2:2950318/101‑1 (MQ=21)                                                              gCGGGGGGTGAAG...CCCCCCGCG..GG...G...GG.CCCC.GGGCTTGCCCC.GGGC.GCAAAGTTTCCCCCCGGACAAACCTTGCCCCCCCCCGCGCCTTTCCCTTCC.GGcc                                      >  1:333941/1‑101 (MQ=2)                                                                ggggggTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCgg                                   >  2:132787/1‑101 (MQ=21)                                                                ggggggTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCgg                                   >  1:2504441/1‑101 (MQ=21)                                                                ggggggTGAAG...CCCCCCGCG..GG...T...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCgc                                   >  2:3057275/1‑100 (MQ=21)                                                                 gggggTGAAG...CCCCCCGCG..GG...G...CG.CCTC.CTGCTTGCCCG.AGGC.G.ACACCTTCCCCCCTTGAGACTCTTGCGTGCGCGGGTCCCTTTGTCTCTCTGGCCCgg                                   >  2:3685466/1‑101 (MQ=0)                                                                                        ccccgcgggtcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAAcgc                      <  2:198001/91‑1 (MQ=255)                                                                                             cgggtcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGcc                 >  2:2646967/6‑101 (MQ=255)                                                                                              gggtcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCa                >  1:1726404/5‑101 (MQ=255)                                                                                              cgggtctccTA.GGGCTTGCCCG.AGTC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACCCGCGcc                 >  2:971247/8‑101 (MQ=255)                                                                                               ggtcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCaa               <  1:2420127/98‑1 (MQ=255)                                                                                                gtcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCaaa              <  1:4210321/99‑1 (MQ=255)                                                                                                 tcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAg             <  1:1409582/100‑1 (MQ=255)                                                                                                 tcG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAg             <  1:3126213/100‑1 (MQ=255)                                                                                                  cG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAgg            <  2:675821/101‑1 (MQ=255)                                                                                                   g.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGa           <  1:1706405/101‑1 (MQ=255)                                                                                                   g.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGa           <  2:412901/101‑1 (MQ=255)                                                                                                   g.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGa           <  2:2318447/101‑1 (MQ=255)                                                                                                   g.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGa           <  2:2364399/101‑1 (MQ=255)                                                                                                     ccTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAg          >  1:3549968/1‑101 (MQ=255)                                                                                                      cTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAgc         <  1:500644/101‑1 (MQ=255)                                                                                                      cTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAgc         >  1:330918/1‑101 (MQ=255)                                                                                                      cTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAgc         >  1:1156906/1‑101 (MQ=255)                                                                                                      cTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAgc         <  1:2116608/101‑1 (MQ=255)                                                                                                       tC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAgcg        <  1:2594007/101‑1 (MQ=255)                                                                                                       tC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAgcg        >  2:4162071/1‑101 (MQ=255)                                                                                                        c.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GACCCGGCGCTGCTAAACGCGCGCCAAAGGAgcgc       >  1:521732/1‑101 (MQ=255)                                                                                                          gggCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGcc      >  2:2717904/1‑101 (MQ=255)                                                                                                          gggCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGcc      >  2:360855/1‑101 (MQ=255)                                                                                                           ggCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGccc     <  1:3185187/101‑1 (MQ=255)                                                                                                           ggCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGccc     >  2:2962473/1‑101 (MQ=255)                                                                                                           ggCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGccc     <  2:2837508/101‑1 (MQ=255)                                                                                                            gCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCg    >  2:521346/1‑101 (MQ=255)                                                                                                            gCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCg    >  2:216944/1‑101 (MQ=255)                                                                                                             cTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCGa   >  2:2226622/1‑101 (MQ=255)                                                                                                             cTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCACTCCTAAACGCGCGCCAAAGGCGCGcccca   >  1:4054149/1‑99 (MQ=255)                                                                                                              ttGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCGAt  <  1:2010365/101‑1 (MQ=255)                                                                                                              ttGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCGAt  <  1:3316645/101‑1 (MQ=255)                                                                                                              |                                                                                                         CAACAGGCAAGGGCCCCGCTTTTCCT.AGGCAAAATACGCCCTTCTTTCTTTT.CGGGGGGGCGGGGGGTGAAG...CCCCCC.....GT...C...CG.CCTC.GGGCTTGCCCG.AGGC.G.AAAGCTTCCCCCCGTGAAAACCTTGCCTGCGCGCGTCGCTTTCCCTTTC.GGCCCGGCGCTGCTAAACGCGCGCCAAAGGAGCGCCCGAT  >  NC_014034/1732789‑1732980 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG