New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395832 =	249 (1.050)	70 (0.300)	5/132	29.6	0.23	intergenic (+644/‑287)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1396469	231 (0.650)					coding (351/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

TAGGCGGCGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC....................................................................................................................................  <  NC_014034/1395874‑1395832 .............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCCGTGGTGCCCGTCGCCATCACCCGCAGGGCGCGGTTTCGATCCACGCCCCCGCGGGGGGAGCG  <  NC_014034/1396469‑1396372                                            ||||||||||||||||||||||||||||||||||                                                                                                   cgatctgtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGG                                                                            <  1:3715594/91‑1 (MQ=0)  ccccggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGG                                                                           >  1:2828917/10‑101 (MQ=0)   cccggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                                                                          <  2:996807/93‑1 (MQ=1)   cccggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                                                                          <  2:893597/93‑1 (MQ=1)   cccggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                                                                          <  2:744687/93‑1 (MQ=1)   cccggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                                                                          <  2:4139063/93‑1 (MQ=1)     cggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAG                                                                        <  1:1683084/95‑1 (MQ=1)     cggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAG                                                                        <  1:553744/95‑1 (MQ=1)      ggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                       >  1:1645540/6‑101 (MQ=1)      ggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                       <  2:2019474/96‑1 (MQ=1)      ggtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                       <  1:3067454/96‑1 (MQ=1)       gtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                                                                      >  1:6895816/5‑101 (MQ=1)       gtgtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGAGATCG                                                                      >  2:3715444/5‑101 (MQ=0)       gtgtAGTGTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                                                                      <  2:5560949/97‑1 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    >  2:4965321/3‑101 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    >  2:5790450/3‑101 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    <  2:32791/99‑1 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    >  2:6108605/3‑101 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    >  2:1457818/3‑101 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    <  1:6979913/99‑1 (MQ=1)         gtAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                                    >  1:1934950/3‑101 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  2:5479831/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  2:4670868/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  2:1823039/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  2:1643646/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  2:7115434/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  1:1266215/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCACTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   <  1:5190418/100‑1 (MQ=1)          tAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCAGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                                                                   >  2:4916999/2‑101 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG                                                                  <  1:6210111/101‑1 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG                                                                  >  1:6963133/1‑101 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG                                                                  >  2:2987923/1‑101 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG                                                                  >  2:4640997/1‑101 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG                                                                  <  1:2822749/101‑1 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGGGGGACCGg                                                                 >  2:2490557/1‑100 (MQ=0)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGg                                                                 <  1:4034932/101‑2 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGg                                                                 >  1:491709/1‑100 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGg                                                                 <  1:2480413/101‑2 (MQ=1)             TTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgg                                                                >  1:223214/1‑99 (MQ=1)               TCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggc                                                              <  1:3750729/101‑5 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             <  1:274083/101‑6 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             >  2:6295190/1‑96 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             <  1:1936314/101‑6 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             >  2:970902/1‑96 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             >  2:3616578/1‑96 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             <  2:3543444/101‑6 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             >  2:3216650/1‑96 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             <  2:2634203/101‑6 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             >  2:1969707/1‑96 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCAGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             <  1:4917243/101‑6 (MQ=0)                CGATCCACGCACCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcc                                                             >  2:6705523/1‑96 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcca                                                            <  1:5774372/101‑7 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcca                                                            <  2:3516712/101‑7 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcca                                                            >  2:1244526/1‑95 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggcca                                                            >  2:6433906/1‑95 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGaggcca                                                            <  1:4198861/101‑7 (MQ=0)                  ATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaa                                                           <  2:3867606/101‑8 (MQ=0)                   TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaat                                                          <  1:4989459/101‑9 (MQ=0)                   TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaat                                                          <  1:335455/101‑9 (MQ=0)                   TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaat                                                          >  2:2468786/1‑93 (MQ=0)                   TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaat                                                          >  2:3878794/1‑93 (MQ=0)                   TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaat                                                          >  2:3541586/1‑93 (MQ=0)                    CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatg                                                         <  1:3128009/101‑10 (MQ=0)                    CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatg                                                         >  1:2506692/1‑92 (MQ=0)                    CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatg                                                         <  1:4149042/101‑10 (MQ=0)                    CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatg                                                         >  1:991654/1‑92 (MQ=0)                    CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatg                                                         <  1:832514/101‑10 (MQ=0)                     CACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatgg                                                        >  2:6170190/1‑91 (MQ=0)                     CACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatgg                                                        >  2:7041335/1‑91 (MQ=0)                     CACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGgggccaatgg                                                        >  1:5779943/1‑91 (MQ=0)                                                                           tcTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCCGTGGTGCCCGTCGCCATCACCCGCAGGGCGCGGTTTCGATCCACGCCCCCGCGGGGGGAGCG  <  1:4391393/99‑1 (MQ=1)                                            ||||||||||||||||||||||||||||||||||                                                                                                   TAGGCGGCGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC....................................................................................................................................  <  NC_014034/1395874‑1395832 .............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCCGTGGTGCCCGTCGCCATCACCCGCAGGGCGCGGTTTCGATCCACGCCCCCGCGGGGGGAGCG  <  NC_014034/1396469‑1396372 Base quality scores:  ATCG  < 3 ≤  ATCG  < 23 ≤  ATCG  < 31 ≤  ATCG  < 34 ≤  ATCG  < 39 ≤  ATCG