New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1396064	163 (0.980)	45 (0.270)	10/136	17.9	0.21	intergenic (+876/‑55)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1396703 =	185 (0.760)					coding (585/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

CTCACGCCTGCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA...............................................................................  >  NC_014034/1396018‑1396064 ...............................................................................ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCTGTCCCTCAT  >  NC_014034/1396703‑1396749                                                ||||||||||||||||||||||||||||||||                                                aacggcgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGG                           >  2:4277513/11‑101 (MQ=0)  acaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGg                          >  2:4459044/10‑100 (MQ=0)  acaccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGC                          <  1:1951327/92‑1 (MQ=0)    accgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                        <  1:4694529/94‑1 (MQ=0)    accgataCCGCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                        <  1:1677151/94‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGgg                       >  1:3471597/7‑99 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                       <  2:382728/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                       <  2:1090030/95‑1 (MQ=0)     ccgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                       <  2:466566/95‑1 (MQ=0)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                      <  2:3940118/96‑1 (MQ=1)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                      <  1:3582701/96‑1 (MQ=1)      cgataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGGGG                      >  2:5040422/6‑101 (MQ=0)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGA                     <  1:3047285/97‑1 (MQ=1)       gataCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGA                     <  2:3456119/97‑1 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC                   >  1:3062032/3‑101 (MQ=1)         taCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC                   <  1:2824961/99‑1 (MQ=1)          aCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGTAACCTCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  1:4325791/100‑1 (MQ=0)          aCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  1:4740235/100‑1 (MQ=1)           CCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                 <  1:2768864/101‑1 (MQ=1)            CGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                <  2:4565951/101‑1 (MQ=1)            CGCGTCGCTCCCCCCACGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                >  1:4868913/1‑101 (MQ=1)             GCGTCGCTTCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               <  2:2291891/101‑1 (MQ=1)             GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               >  1:2079276/1‑101 (MQ=1)             GCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               <  1:4380840/101‑1 (MQ=1)              CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              <  2:369475/101‑1 (MQ=1)               GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACg             <  2:3020265/101‑2 (MQ=11)                 CGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggt           >  1:3082031/1‑98 (MQ=32)                  GCTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGTTCGAAACgggg          >  1:468672/1‑97 (MQ=14)                   CTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggtgt         >  1:2403415/1‑96 (MQ=32)                   CTCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggggt         >  1:2179330/1‑96 (MQ=14)                    TCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTC        >  1:3041637/1‑101 (MQ=33)                    TCCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTC        >  1:1614679/1‑101 (MQ=33)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       <  2:2623123/101‑1 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       <  2:2233285/101‑1 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       <  2:1333868/101‑1 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       >  2:424923/1‑101 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       >  1:3802884/1‑101 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       >  2:4476684/1‑101 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCC       >  2:879524/1‑101 (MQ=34)                     CCCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGGGGATCGAAACCgcggcc       >  2:4932231/1‑95 (MQ=2)                      CCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCa      >  1:2531396/1‑100 (MQ=35)                      CCCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCa      <  2:4814664/101‑2 (MQ=35)                       CCCCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtccag     >  2:2467617/1‑92 (MQ=25)                         CCGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCaagcg   <  1:2479256/101‑6 (MQ=25)                          CGCGGGGGCGTGGATCGAAACATCGATGATCAAATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCagcgt  >  1:4474754/1‑96 (MQ=40)                                                ||||||||||||||||||||||||||||||||                                                CTCACGCCTGCCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA...............................................................................  >  NC_014034/1396018‑1396064 ...............................................................................ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCTGTCCCTCAT  >  NC_014034/1396703‑1396749 Base quality scores:  ATCG  < 3 ≤  ATCG  < 19 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 38 ≤  ATCG