New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1395666	186 (1.130)	40 (0.240)	10/134	17.7	0.19	intergenic (+478/‑453)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1397836 =	154 (0.630)					intergenic (+140/+1758)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

CGGGGCGAAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT...............................................................................  >  NC_014034/1395622‑1395666 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGGCACCTCAGCC  >  NC_014034/1397836‑1397881                                              |||||||||||||||||||||||||||||||||                                               ctcgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTG                         <  1:4689136/92‑1 (MQ=0)  tcgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                        <  2:1455824/93‑1 (MQ=0)  tcgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                        <  1:4696864/93‑1 (MQ=0)  tcgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                        <  2:4033074/93‑1 (MQ=0)  tcgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                        <  2:409452/93‑1 (MQ=0)  tcgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                        <  1:1069576/93‑1 (MQ=0)   cgcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                       >  1:308969/8‑101 (MQ=0)    gcggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                      >  2:2637875/7‑101 (MQ=1)     cggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGGGGGGATC                     >  1:1205380/6‑101 (MQ=0)     cggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                     <  2:4939102/96‑1 (MQ=1)     cggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                     <  2:4132904/96‑1 (MQ=1)     cggttGCGTCGCGCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                     <  1:1431807/96‑1 (MQ=0)      ggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                    >  1:2327536/5‑101 (MQ=1)      ggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                    <  2:2755801/97‑1 (MQ=1)      ggttGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGGGGACCG                    >  2:2397628/5‑101 (MQ=0)      ggttGCGTCGCGCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                    <  2:1666920/97‑1 (MQ=0)         tGCGTCGCTCCCCCCGGGGGGGCGTTGATCGAAACATGGCTAGGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                 <  1:3657638/100‑1 (MQ=0)         tGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGGTATGGCGTCGGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                 >  2:804286/2‑101 (MQ=0)         tGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                 <  1:1343899/100‑1 (MQ=1)         tGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                 <  1:180527/100‑1 (MQ=1)         tGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCCCGGGGGCGTGGGTCGAAA                 >  1:4887194/2‑101 (MQ=0)         tGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGGCGCTCCCCCCGCGGGGGCGTGGATCGAAA                 >  2:290430/2‑101 (MQ=1)          GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                <  1:716399/101‑1 (MQ=1)           CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATTGAAAac               >  2:3612259/1‑99 (MQ=1)           CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACC               >  2:2645958/1‑101 (MQ=1)            GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCC              <  2:1090364/101‑1 (MQ=1)            GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCC              >  1:4469845/1‑101 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGcc           <  1:3386612/101‑3 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCAC         >  1:483853/1‑101 (MQ=1)                  CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACg        >  1:3586121/1‑100 (MQ=1)                  CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAACCGccccg        >  2:1446/1‑96 (MQ=0)                  CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGGGGATCGAAACCCCCCACC        >  2:1299302/1‑101 (MQ=0)                   CCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACgc       >  1:2290327/1‑99 (MQ=1)                    CCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTC      >  1:1657973/1‑101 (MQ=0)                    CCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTC      >  2:973888/1‑101 (MQ=0)                      CCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCtt    >  1:2937617/1‑99 (MQ=0)                      CCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCtt    <  1:2630314/101‑3 (MQ=0)                        GCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACggctttg  >  1:4563536/1‑94 (MQ=0)                        GCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCttgg  >  2:2763280/1‑97 (MQ=0)                        GCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCttgg  <  2:3933939/101‑5 (MQ=0)                                              |||||||||||||||||||||||||||||||||                                               CGGGGCGAAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT...............................................................................  >  NC_014034/1395622‑1395666 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGGCACCTCAGCC  >  NC_014034/1397836‑1397881 Base quality scores:  ATCG  < 3 ≤  ATCG  < 12 ≤  ATCG  < 21 ≤  ATCG  < 31 ≤  ATCG  < 37 ≤  ATCG