New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1395397	172 (1.060)	50 (0.310)	4/132	22.1	0.23	intergenic (+209/‑722)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1397499 =	166 (0.680)					coding (1381/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

CGACAAGCACCTTCGCACCACCGGAGCAATTTACACCGTCTGGTCAGCGGGTTACGAAACGGCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACT..............................................................................  >  NC_014034/1395301‑1395397 ...................................................................................................................................GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAACCCGATCAT  >  NC_014034/1397499‑1397542                                                                                                  ||||||||||||||||||||||||||||||||||                                             CGACAAGCACCTTCGCACCACCGGAGCAATTTACACCGTCTGGTCAGCGGGTTACGAAACGGCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCcac                                                                            >  2:1504335/1‑98 (MQ=1)                                                     cgtcaagattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCG                        >  1:1410827/11‑101 (MQ=1)                                                     cgtcaagattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCG                        >  1:2113248/11‑101 (MQ=1)                                                       tcaagattCAGTCGCGCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTG                      <  2:3251915/93‑1 (MQ=1)                                                        caagattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGG                     <  1:4882990/94‑1 (MQ=1)                                                         cagattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGA                    <  2:815732/95‑1 (MQ=1)                                                         aagattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGA                    <  1:3662728/95‑1 (MQ=1)                                                         aagattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGA                    <  1:2524565/95‑1 (MQ=1)                                                          agattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGAT                   >  2:1988707/6‑101 (MQ=1)                                                           gattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATC                  >  2:1027640/5‑101 (MQ=1)                                                           gattCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGGGGTCGCTCCCCCCGCGGGGGCGTGGATC                  >  2:506593/5‑101 (MQ=1)                                                           atctCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  1:4612303/97‑1 (MQ=1)                                                            attCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGGCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:2002408/4‑101 (MQ=1)                                                            attCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:212518/4‑101 (MQ=1)                                                            attCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  1:60664/98‑1 (MQ=1)                                                            attCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  1:4809219/98‑1 (MQ=1)                                                             ttCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTACGGCCGGTGGTCGCTCCCCCCGCGGGGGCGCGGATCGA                >  1:4263048/3‑101 (MQ=0)                                                             ttCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                <  1:2681320/99‑1 (MQ=1)                                                             ttCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                <  2:1436274/99‑1 (MQ=1)                                                             ttCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                <  2:4752545/99‑1 (MQ=1)                                                              tCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGca               >  2:2672616/2‑99 (MQ=1)                                                              tCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               >  2:3575117/2‑101 (MQ=1)                                                              tCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               >  2:3778276/2‑101 (MQ=1)                                                              tCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               <  1:1231639/100‑1 (MQ=1)                                                               CAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCagat              >  2:4611981/1‑97 (MQ=1)                                                                AGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCTCCGCGGGGGCGTGGATCGAAAC             <  2:515778/101‑1 (MQ=1)                                                                AGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  1:955020/101‑1 (MQ=1)                                                                AGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  1:2866293/101‑1 (MQ=1)                                                                AGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  2:4756481/101‑1 (MQ=1)                                                                 GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA            >  1:1683291/1‑101 (MQ=1)                                                                 GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA            <  1:14932/101‑1 (MQ=1)                                                                 GTCGCCCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAGACA            <  1:1896147/101‑1 (MQ=0)                                                                  TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAc           <  1:2535894/101‑2 (MQ=1)                                                                   CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAcc          >  2:490366/1‑99 (MQ=11)                                                                   CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAcc          <  1:1849072/101‑3 (MQ=11)                                                                    GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCC         >  2:4984721/1‑101 (MQ=11)                                                                    GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCC         >  1:2790962/1‑101 (MQ=11)                                                                    GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCC         <  1:3638760/101‑1 (MQ=11)                                                                     CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCg        >  2:2897307/1‑100 (MQ=11)                                                                     CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCg        <  2:4893434/101‑2 (MQ=11)                                                                      cCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCgg       <  2:2086059/100‑3 (MQ=11)                                                                      cCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCgg       <  2:3894399/100‑3 (MQ=11)                                                                      TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCgg       >  2:4618857/1‑99 (MQ=11)                                                                       CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggc      >  1:2159312/1‑98 (MQ=11)                                                                       CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggc      <  2:4338879/101‑4 (MQ=11)                                                                       CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggc      >  2:1887599/1‑98 (MQ=11)                                                                       CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggc      >  2:1542296/1‑98 (MQ=11)                                                                        CCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggcg     >  2:3771739/1‑97 (MQ=11)                                                                           CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggcgccg  <  1:2221359/101‑8 (MQ=0)                                                                           CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggcgccg  >  1:2913867/1‑94 (MQ=0)                                                                           CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCggcgccg  >  1:4473046/1‑94 (MQ=0)                                                                                                  ||||||||||||||||||||||||||||||||||                                             CGACAAGCACCTTCGCACCACCGGAGCAATTTACACCGTCTGGTCAGCGGGTTACGAAACGGCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACT..............................................................................  >  NC_014034/1395301‑1395397 ...................................................................................................................................GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAACCCGATCAT  >  NC_014034/1397499‑1397542 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG