New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1396198	182 (1.140)	35 (0.220)	7/130	19.3	0.28	coding (80/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1434680 =	NA (NA)					intergenic (‑459/‑499)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CGCCACGCTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..............................................................................  >  NC_014034/1396156‑1396198 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCGCCCGCGGC  >  NC_014034/1434680‑1434721                                            |||||||||||||||||||||||||||||||||||                                            ctcgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTG                      <  1:4689136/93‑1 (MQ=0)  tcgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                     <  2:1455824/94‑1 (MQ=0)  tcgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                     <  1:4696864/94‑1 (MQ=0)  tcgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                     <  2:4033074/94‑1 (MQ=0)  tcgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                     <  2:409452/94‑1 (MQ=0)  tcgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                     <  1:1069576/94‑1 (MQ=0)   cgcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                    >  1:308969/7‑101 (MQ=0)    gcggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                   >  2:2637875/6‑101 (MQ=1)     cggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGGGGGGATC                  >  1:1205380/5‑101 (MQ=0)     cggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  2:4939102/97‑1 (MQ=1)     cggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  2:4132904/97‑1 (MQ=1)     cggtTGCGTCGCGCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  1:1431807/97‑1 (MQ=0)      ggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:2327536/4‑101 (MQ=1)      ggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  2:2755801/98‑1 (MQ=1)      ggtTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGGGGACCG                 >  2:2397628/4‑101 (MQ=0)      ggtTGCGTCGCGCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  2:1666920/98‑1 (MQ=0)         TGCGTCGCTCCCCCCGGGGGGGCGTTGATCGAAACATGGCTAGGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAA             <  1:3657638/101‑1 (MQ=0)         TGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGGTATGGCGTCGGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAA             >  2:804286/1‑101 (MQ=0)         TGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAA             <  1:1343899/101‑1 (MQ=1)         TGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAA             <  1:180527/101‑1 (MQ=1)         TGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCCCGGGGGCGTGGGTCG.AAA             >  1:4887194/1‑101 (MQ=0)         TGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGGCGCTCCCCCCGCGGGGGCGTGGATCG.AAA             >  2:290430/1‑101 (MQ=1)          GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAAC            <  1:716399/101‑1 (MQ=1)           CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATTG.AAAac           >  2:3612259/1‑99 (MQ=1)           CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACC           >  2:2645958/1‑101 (MQ=1)            GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCc          <  2:1090364/101‑2 (MQ=1)            GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCc          >  1:4469845/1‑100 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCcgcc       <  1:3386612/101‑5 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCcgccac     >  1:483853/1‑95 (MQ=1)                  CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAACCGCCCcg     >  2:1446/1‑99 (MQ=0)                  CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCcgccacg    >  1:3586121/1‑94 (MQ=1)                  CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGGGGATCG.AAACCCCCCacc    >  2:1299302/1‑98 (MQ=0)                   CCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCcgccacgc   >  1:2290327/1‑93 (MQ=1)                    CCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCcgccacgtc  >  1:1657973/1‑92 (MQ=0)                    CCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCcgccacgtc  >  2:973888/1‑92 (MQ=0)                                            |||||||||||||||||||||||||||||||||||                                            CGCCACGCTGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..............................................................................  >  NC_014034/1396156‑1396198 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCG.AAACCGCCCGCGGC  >  NC_014034/1434680‑1434721 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 22 ≤  ATCG  < 32 ≤  ATCG  < 37 ≤  ATCG