New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1396064	300 (1.010)	81 (0.270)	5/130	31.6	0.20	intergenic (+876/‑55)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1398037 =	344 (0.750)					intergenic (+341/+1557)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

CTCACGCCTGCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA...........................................................................  >  NC_014034/1396018‑1396064 ..................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGTAAGCGGTGCAT  >  NC_014034/1398037‑1398076                                                |||||||||||||||||||||||||||||||||||                                         aacaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGG                       >  1:1878962/11‑101 (MQ=0) aacaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGG                       >  2:817303/11‑101 (MQ=0)  acaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGC                      <  1:4860105/92‑1 (MQ=0)  acaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGC                      <  1:3595709/92‑1 (MQ=0)  acaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGC                      >  2:5502327/10‑101 (MQ=0)  acaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGC                      <  2:8318503/92‑1 (MQ=0)   caccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCG                     >  2:6336529/9‑101 (MQ=0)   caccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCG                     >  1:3809765/9‑101 (MQ=0)    accgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGg                    >  1:4750146/8‑100 (MQ=0)    accgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                    <  1:5136142/94‑1 (MQ=0)    accgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                    >  1:3050425/8‑101 (MQ=0)    accgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                    <  1:383803/94‑1 (MQ=0)    accgataCCGCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                    <  1:1201551/94‑1 (MQ=0)    accgataCCGCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                    <  2:6346506/94‑1 (MQ=0)     ccgatcCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                   <  2:7386992/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGTCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGcg                   >  2:6001437/7‑99 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGTGCGTG                   <  1:8842759/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                   <  2:2334824/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                   <  2:3506456/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                   <  2:4222500/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                   <  1:6002589/95‑1 (MQ=0)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                  >  2:1191513/6‑101 (MQ=1)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                  >  1:1875214/6‑101 (MQ=1)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                  >  1:5480410/6‑101 (MQ=1)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                  <  2:6452681/96‑1 (MQ=1)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTGGCTCCCCCCGCGGGGGCGTGGA                 >  2:2917844/5‑101 (MQ=0)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGGGGGGA                 >  2:4189980/5‑101 (MQ=0)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGA                 >  2:2866234/5‑101 (MQ=1)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGA                 <  2:7471257/97‑1 (MQ=1)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGGGGA                 >  2:979085/5‑101 (MQ=0)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCCCGGGGGCGGGGA                 >  1:1254620/5‑101 (MQ=0)        atcCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                <  2:4849076/98‑1 (MQ=1)        atacctCGTCGCTCCGCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                >  1:8849278/7‑101 (MQ=0)        ataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                >  1:1425145/4‑101 (MQ=1)        ataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                >  2:5040457/4‑101 (MQ=1)        ataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                >  1:3667661/4‑101 (MQ=1)        ataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                >  1:5706941/4‑101 (MQ=1)         tcCCGCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACAGCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               <  1:4276355/99‑1 (MQ=0)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               <  1:4692891/99‑1 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               <  1:3467146/99‑1 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               <  1:7951378/99‑1 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               >  2:5551840/3‑101 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               >  2:5666869/3‑101 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC               <  2:8200855/99‑1 (MQ=1)          aCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG              <  1:662779/100‑1 (MQ=1)          aCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG              >  1:5616993/2‑101 (MQ=1)          aCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAGCG              >  2:4912458/2‑101 (MQ=1)            CGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaa            >  1:3753461/1‑99 (MQ=31)            CGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaa            <  1:9054990/101‑3 (MQ=31)            CGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaa            <  2:6208706/101‑3 (MQ=31)            CGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaa            >  2:65333/1‑99 (MQ=31)            CGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaa            <  2:4073892/101‑3 (MQ=31)             GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaca           >  2:8376901/1‑98 (MQ=11)             GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA           >  2:7076508/1‑101 (MQ=32)             GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA           <  2:3035972/101‑1 (MQ=32)             GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA           <  1:8353663/101‑1 (MQ=32)             GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA           >  1:932870/1‑101 (MQ=32)             GCGTCGCTCCCCCCGCGGGGCCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCtaaa           <  1:7214851/101‑5 (MQ=2)              CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAc          >  1:449326/1‑100 (MQ=33)              CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAc          <  1:6479691/101‑2 (MQ=33)              CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAc          <  2:5629895/101‑2 (MQ=33)               GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCGGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcg         <  2:1869087/101‑3 (MQ=17)               GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGaaccg         >  1:1549039/1‑96 (MQ=14)               GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGCAAcg         >  2:2603951/1‑99 (MQ=11)               GTCGCCCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcg         <  1:4044847/101‑3 (MQ=17)               GTCGCCCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcg         <  1:5759719/101‑3 (MQ=17)                TCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcgg        >  1:4192816/1‑98 (MQ=17)                 CGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcggt       <  1:817316/101‑5 (MQ=17)                 CGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcggt       >  2:901271/1‑97 (MQ=17)                 CGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAcggg       >  1:5130801/1‑97 (MQ=17)                  GCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTG     <  2:1067441/101‑1 (MQ=14)                  GCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTG     >  2:8417196/1‑101 (MQ=14)                  GCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTG     >  2:802275/1‑101 (MQ=14)                  GCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTG     >  1:1146907/1‑101 (MQ=14)                   CTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGt    <  1:6374660/101‑2 (MQ=11)                   CTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGt    <  1:6408181/101‑2 (MQ=11)                    cCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGtc   <  2:234203/100‑3 (MQ=2)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGtcc  >  2:7375582/1‑98 (MQ=9)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGtcc  >  1:6663742/1‑98 (MQ=9)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGtcc  >  2:8858643/1‑98 (MQ=9)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACGGTGCcc  >  2:3717726/1‑99 (MQ=9)                                                |||||||||||||||||||||||||||||||||||                                         CTCACGCCTGCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA...........................................................................  >  NC_014034/1396018‑1396064 ..................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGTAAGCGGTGCAT  >  NC_014034/1398037‑1398076 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG