New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1397632 =	137 (0.900)	52 (0.340)	5/134	25.6	0.28	coding (1514/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	= 1434909	127 (0.560)					intergenic (‑688/‑270)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CGGAACTCTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC............................................................................  <  NC_014034/1397676‑1397632 ..............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCCAATCCCGCG  <  NC_014034/1434909‑1434867                                              |||||||||||||||||||||||||||||||||                                            agccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGG                      >  2:3762607/9‑101 (MQ=0) agccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGG                      >  2:2555617/9‑101 (MQ=0) agccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGG                      >  1:2433721/9‑101 (MQ=0)  gccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGG                     >  2:3024014/8‑101 (MQ=0)  gccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGG                     >  1:936754/8‑101 (MQ=0)  gccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGG                     >  1:2117313/8‑101 (MQ=0)   ccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGG                    <  1:195512/95‑1 (MQ=0)   ccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGG                    <  1:2316220/95‑1 (MQ=0)     ccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGA                  <  2:2604205/97‑1 (MQ=1)     ccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGA                  <  1:895726/97‑1 (MQ=1)      cggtaTAGGTTCGATCCACGCCCCCGCGGGGGGCGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAG                 <  2:2059702/96‑1 (MQ=0)      cgggGTAGTTTCGAACCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAG                 <  1:4213785/97‑1 (MQ=0)      cggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAG                 <  1:19824/98‑1 (MQ=1)      cggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAG                 >  1:1292481/4‑101 (MQ=1)       gtTGTAGTTCCGATCCACGCCCCCGCGGGGGGAGCGCCCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGCTCCACGCCCCCGCGGGGGGAGC                <  2:4167770/99‑1 (MQ=0)       ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                <  2:717219/99‑1 (MQ=1)       ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                >  1:1925187/3‑101 (MQ=1)       ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                >  1:1729196/3‑101 (MQ=1)       ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                <  1:168507/99‑1 (MQ=1)       ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC                <  2:1983309/99‑1 (MQ=1)         TGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA              >  1:3233515/1‑101 (MQ=1)         TGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA              >  2:3379842/1‑101 (MQ=1)           TAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC            <  1:2414887/101‑1 (MQ=1)           TAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC            <  1:278200/101‑1 (MQ=1)           TAGTTGCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC            <  2:3437707/101‑1 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCTCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg           >  1:835095/1‑100 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACCg           >  1:1177674/1‑100 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg           >  1:4081188/1‑100 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg           <  1:298260/101‑2 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg           <  1:1689437/101‑2 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGCCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg           >  1:3763901/1‑100 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCgg          >  2:4063411/1‑99 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCgg          >  1:1634982/1‑99 (MQ=1)              TTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggg         <  2:3522513/101‑4 (MQ=1)                TCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggc       <  2:3813060/101‑6 (MQ=1)                TCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggc       <  1:4119223/101‑6 (MQ=1)                TCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggc       >  1:3118427/1‑96 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcc      >  1:2299695/1‑95 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcc      >  1:2994627/1‑95 (MQ=1)                  GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcca     <  1:2274427/101‑8 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcca     <  1:2324378/101‑8 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcca     <  2:3989742/101‑8 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcca     <  2:1302922/101‑8 (MQ=0)                   ATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaa    >  2:3119270/1‑93 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaat   <  1:2879910/101‑10 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaat   >  1:4186206/1‑92 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaat   <  1:4402835/101‑10 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaat   <  2:2386524/101‑10 (MQ=0)                     CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggcccatg  <  2:3772340/101‑11 (MQ=0)                     CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaatg  <  1:3407671/101‑11 (MQ=0)                     CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaatg  >  1:3690638/1‑91 (MQ=0)                     CCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCggggccaatg  <  2:749586/101‑11 (MQ=0)                                              |||||||||||||||||||||||||||||||||                                            CGGAACTCTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC............................................................................  <  NC_014034/1397676‑1397632 ..............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCCAATCCCGCG  <  NC_014034/1434909‑1434867 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG