New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1397836 =	128 (0.880)	33 (0.230)	7/138	21.8	0.20	intergenic (+140/+1758)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
	?	NC_014034	= 1434848	135 (0.640)					intergenic (‑627/‑331)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

GGGCTGAGGTGCCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC.............................................................................  <  NC_014034/1397882‑1397836 ..............................................................................CCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACAAGGCGCCAC  <  NC_014034/1434848‑1434803                                                |||||||||||||||||||||||||||||||                                               tccaagacGTGGCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCG                         <  1:1034395/93‑1 (MQ=0)   caagacGTGGCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCG                       <  2:2123311/95‑1 (MQ=0)   caagacGTGGCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCG                       <  1:2278512/95‑1 (MQ=0)      gacGTGGCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGG                    <  1:49656/98‑1 (MQ=0)       acGTGGCGGGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGG                   <  2:1664950/99‑1 (MQ=0)        cGTGGCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:658081/100‑1 (MQ=1)          tggCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAG                <  1:466959/98‑1 (MQ=1)          tggCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAG                >  2:3338866/4‑101 (MQ=1)          tggCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAG                >  2:3087523/4‑101 (MQ=1)           ggCGGGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  2:2928340/99‑1 (MQ=1)           ggCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  2:3732868/99‑1 (MQ=1)            gCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGGGCG              >  2:2850897/2‑101 (MQ=1)            gCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:3472945/100‑1 (MQ=1)             CGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             <  2:437598/101‑1 (MQ=1)               GGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg           >  2:4199809/1‑100 (MQ=1)                GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgc          >  1:3900838/1‑99 (MQ=1)                GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgc          >  2:2561397/1‑99 (MQ=1)                 TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgca         <  2:2429961/101‑4 (MQ=1)                  TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcac        >  1:3235548/1‑97 (MQ=1)                   TCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGGGCGACgcaac       >  1:4090654/1‑96 (MQ=0)                   TCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGccgcaac       <  1:1921921/101‑8 (MQ=0)                   TCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaac       >  1:2234409/1‑96 (MQ=1)                    CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGTGGAGCGACgcaacc      >  2:1072222/1‑95 (MQ=0)                    CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaacc      >  1:521938/1‑95 (MQ=1)                    CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaacc      <  2:412144/101‑7 (MQ=1)                     ctTCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccg     <  2:184614/99‑8 (MQ=0)                     GATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccg     >  1:1343515/1‑94 (MQ=1)                     GATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccg     <  2:2627926/101‑8 (MQ=1)                     GATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccg     >  2:3268080/1‑94 (MQ=1)                      ATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccgc    <  1:1291637/101‑9 (MQ=0)                      ATCCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccgc    >  2:1243074/1‑93 (MQ=0)                        CCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccgcga  >  2:2948618/1‑91 (MQ=0)                        CCACGCCCCCGCGGGGGGAGCGACGCCGCTGGAAAACCTGACACTGCCGCCATAGCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcaaccgcga  >  1:58498/1‑91 (MQ=0)                                                |||||||||||||||||||||||||||||||                                               GGGCTGAGGTGCCGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC.............................................................................  <  NC_014034/1397882‑1397836 ..............................................................................CCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACAAGGCGCCAC  <  NC_014034/1434848‑1434803 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 38 ≤  ATCG