New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1396771 =	160 (0.980)	37 (0.230)	10/138	23.6	0.18	coding (653/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	= 1434849	171 (0.720)					intergenic (‑628/‑330)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CATCCACACGGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...........................................................................  <  NC_014034/1396812‑1396771 .........................................................................TCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACAAGGCGC  <  NC_014034/1434849‑1434806                                           |||||||||||||||||||||||||||||||                                             gctggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGG                  >  1:4652269/6‑101 (MQ=255) gctggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGG                  >  2:4614585/6‑101 (MQ=255)  ctggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGG                 <  2:55215/97‑1 (MQ=2)  ctggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGG                 >  1:178977/5‑101 (MQ=2)   tggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGG                <  1:2141906/98‑1 (MQ=2)   tggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGG                >  1:769344/4‑101 (MQ=2)   tggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGG                >  1:537297/4‑101 (MQ=2)    ggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCGGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGG               <  2:3098287/99‑1 (MQ=255)    ggACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGTGGG               <  2:3955160/99‑1 (MQ=255)     gACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGA              <  1:2302081/100‑1 (MQ=2)     gACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGA              <  2:3793214/100‑1 (MQ=2)      ACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGgg             >  2:3531662/1‑99 (MQ=2)      ACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAG             >  2:4227925/1‑101 (MQ=2)      ACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAG             <  2:2864458/101‑1 (MQ=2)       CACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGC            >  2:2610347/1‑101 (MQ=0)        ctcGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCG           <  2:4039890/98‑1 (MQ=14)        cccGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCG           <  2:3823899/98‑1 (MQ=11)        accGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCG           <  2:4616541/98‑1 (MQ=11)         ccGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGA          >  1:2000841/3‑101 (MQ=11)          cGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGAg         >  1:4040175/2‑100 (MQ=11)          cGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC         <  2:3576413/100‑1 (MQ=11)           GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg        <  2:3926512/101‑2 (MQ=1)           GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg        <  1:2325735/101‑2 (MQ=1)            TTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgc       <  2:2717086/101‑3 (MQ=1)            TTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgc       >  2:1780885/1‑99 (MQ=1)            TTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgc       <  1:2929118/101‑3 (MQ=1)             TTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcg      >  2:3759387/1‑98 (MQ=0)             TTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcg      >  1:521878/1‑98 (MQ=0)               CGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCTCGGGGGGAGCGACgcggt    >  1:974879/1‑96 (MQ=0)               CGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGTGACgcggt    <  1:345879/101‑6 (MQ=0)                GATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggta   >  2:1255147/1‑95 (MQ=0)                GATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggta   <  1:455333/101‑7 (MQ=0)                GATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggta   >  1:2481658/1‑95 (MQ=0)                GATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggta   >  1:1089039/1‑95 (MQ=0)                 ATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggtat  >  2:2358821/1‑94 (MQ=0)                 ATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggtat  >  2:3830916/1‑94 (MQ=0)                 ATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATTTGATCATCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcggtat  >  1:4201481/1‑94 (MQ=0)                                           |||||||||||||||||||||||||||||||                                             CATCCACACGGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...........................................................................  <  NC_014034/1396812‑1396771 .........................................................................TCCATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACAAGGCGC  <  NC_014034/1434849‑1434806 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG