New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1396705 =	139 (0.990)	33 (0.240)	2/132	26.1	0.32	coding (587/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	= 1434778	NA (NA)					intergenic (‑557/‑401)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

ATGAGGGACAGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG............................................................................  <  NC_014034/1396749‑1396705 ...............................................................................CGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCTGCCC  <  NC_014034/1434778‑1434737                                              ||||||||||||||||||||||||||||||||||                                           ggtgtcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCG                      >  2:1064008/9‑101 (MQ=0) ggtgtcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCG                      >  2:3801100/9‑101 (MQ=0)   tgtcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGG                    >  1:3223744/7‑101 (MQ=0)   tgtcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGG                    >  1:3862991/7‑101 (MQ=0)   tgtcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGG                    <  1:509635/95‑1 (MQ=0)    gtcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGG                   <  1:3279536/96‑1 (MQ=0)     tcagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGG                  <  2:1438207/97‑1 (MQ=0)      cagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGG                 <  2:2927319/98‑1 (MQ=1)      cagCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGG                 >  1:2122348/4‑101 (MQ=1)        gCAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAG               <  2:2861610/100‑1 (MQ=1)         CAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGCGC              >  1:648318/1‑101 (MQ=0)         CAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGC              <  1:2438902/101‑1 (MQ=1)         CAGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGC              >  2:639350/1‑101 (MQ=1)          agcGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCG             >  2:896233/4‑101 (MQ=1)            cGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC           <  2:3377662/100‑1 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg          <  2:3618542/101‑2 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg          <  2:836257/101‑2 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg          >  2:292905/1‑100 (MQ=1)              TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACga         <  2:4067721/101‑3 (MQ=1)              TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACga         <  1:1696140/101‑3 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  2:3253669/101‑4 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  2:2043874/101‑4 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  2:1583620/101‑4 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  1:3139733/101‑4 (MQ=1)                gCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgata       <  1:512400/100‑5 (MQ=1)                TCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgata       <  2:2813122/101‑5 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatag      >  2:3909026/1‑96 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgataa      >  2:512343/1‑96 (MQ=1)                  GATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagc     >  2:3689584/1‑95 (MQ=1)                  GATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagc     >  1:4103861/1‑95 (MQ=1)                   ATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagcc    >  2:2943274/1‑94 (MQ=1)                   ATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagcc    >  1:1265166/1‑94 (MQ=1)                     CCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagcccg  >  1:1363053/1‑92 (MQ=0)                                              ||||||||||||||||||||||||||||||||||                                           ATGAGGGACAGGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG............................................................................  <  NC_014034/1396749‑1396705 ...............................................................................CGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCTGCCC  <  NC_014034/1434778‑1434737 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG