New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397533	242 (1.470)	53 (0.320)	5/134	21.4	0.30	coding (1415/1578 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.

CCTGCACCACCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAA................................................................................  >  NC_014034/1397488‑1397533 ...............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCGCCCGCGGCGTTTG  >  NC_014034/1434680‑1434726                                               |||||||||||||||||||||||||||||||||                                                gcagcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGT                           <  2:2261171/91‑1 (MQ=0)  cagcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTG                          <  2:189690/92‑1 (MQ=0)  cagcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTG                          >  2:2234415/10‑101 (MQ=0)  cagcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTG                          >  1:2928173/10‑101 (MQ=0)   agcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGG                         <  1:82140/93‑1 (MQ=0)   agcggctgCGGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGG                         <  1:3526510/93‑1 (MQ=0)    gcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCACCCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        <  2:1661797/94‑1 (MQ=0)    gcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        <  2:1302225/94‑1 (MQ=0)    gcggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        <  1:477855/94‑1 (MQ=0)     cggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  1:54187/95‑1 (MQ=1)     cggctgCGGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  2:206686/95‑1 (MQ=0)      ggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                      >  2:3739807/6‑101 (MQ=1)      ggctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGGGGTTC                      >  1:2638458/6‑101 (MQ=0)       gctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                     <  2:1961055/97‑1 (MQ=1)       gctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                     <  1:3621198/97‑1 (MQ=1)       gctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                     >  1:1007183/5‑101 (MQ=1)       gcggCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                     <  2:3585850/97‑1 (MQ=1)        ctgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                    <  2:2718213/98‑1 (MQ=1)        ctgCGGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                    <  1:1754332/98‑1 (MQ=1)         tgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                   <  2:2101507/99‑1 (MQ=1)         tgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                   <  2:4062006/99‑1 (MQ=1)         tgCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                   >  2:1840076/3‑101 (MQ=1)          ggGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                  <  1:642809/99‑1 (MQ=1)          gCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                  <  1:3846625/100‑1 (MQ=1)          gCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                  >  1:1266709/2‑101 (MQ=1)           CGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                 <  2:3173527/101‑1 (MQ=1)            GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACC                >  1:4112736/1‑101 (MQ=1)            GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACC                <  1:3701546/101‑1 (MQ=1)             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCc               <  2:3134417/101‑2 (MQ=1)              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCcc              <  1:4543318/101‑3 (MQ=1)              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCcc              <  1:4517310/101‑3 (MQ=1)              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCcc              <  1:2411224/101‑3 (MQ=1)              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCcc              >  1:2185868/1‑99 (MQ=1)                GCTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgc            <  1:3928218/101‑5 (MQ=1)                 CTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcg           >  1:640531/1‑96 (MQ=1)                 CTCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCCCCG           >  2:908102/1‑101 (MQ=1)                  TCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcgg          >  1:2280190/1‑95 (MQ=1)                  TCCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcgg          <  2:4644622/101‑7 (MQ=1)                   CCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcggc         >  2:3670788/1‑94 (MQ=1)                   CCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcggc         >  2:4398618/1‑94 (MQ=1)                   CCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcggc         <  2:974032/101‑8 (MQ=1)                   CCCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCccgcggc         >  1:780972/1‑94 (MQ=1)                    CCCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCG      >  2:3079507/1‑101 (MQ=0)                     CCCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGT     >  1:2193081/1‑101 (MQ=0)                      CCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTc    <  1:432345/101‑2 (MQ=0)                      CCCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTc    <  2:3830578/101‑2 (MQ=0)                       CCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTcc   <  2:2666269/101‑3 (MQ=0)                       CCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTcc   <  2:2375870/101‑3 (MQ=0)                       CCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTcc   <  1:4175887/101‑3 (MQ=0)                       CCGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTcc   >  1:1111164/1‑99 (MQ=0)                        CGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTccc  <  2:3933493/101‑4 (MQ=0)                        CGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTccc  <  1:4228479/101‑4 (MQ=0)                        CGCGGGGGCGTGGATCGAAACAAAAAGCCGCCGACAAACGCGGCAACCGGCCCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC..CCCGCGGCGTccc  <  1:1554231/101‑4 (MQ=0)                                               |||||||||||||||||||||||||||||||||                                                CCTGCACCACCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAA................................................................................  >  NC_014034/1397488‑1397533 ...............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCGCCCGCGGCGTTTG  >  NC_014034/1434680‑1434726 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG