New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1396506 =	154 (0.980)	39 (0.250)	8/132	24.4	0.18	coding (388/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	= 1434381	211 (0.890)					intergenic (‑160/‑798)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CCCACGAAAGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG............................................................................  <  NC_014034/1396550‑1396506 ...............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCCAGCAGGAT  <  NC_014034/1434381‑1434340                                              ||||||||||||||||||||||||||||||||||                                           ggcgcgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGG                      >  2:1614773/10‑101 (MQ=0) ggcgcgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGG                      <  2:2178612/92‑1 (MQ=0)   cgcgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGG                    <  2:1030456/94‑1 (MQ=0)   cgcgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGG                    <  1:463628/94‑1 (MQ=0)    gcgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGG                   >  2:3769477/7‑101 (MQ=0)     cgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:651747/96‑1 (MQ=1)     cgcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:2478808/96‑1 (MQ=1)      gcacGCAGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGA                 <  2:1642097/97‑1 (MQ=0)      gcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCCTTGTTTCGATCCACGCCCCCGCGGGGGGc                 >  2:985805/5‑100 (MQ=0)      gcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGg                 >  1:2901129/5‑100 (MQ=1)      gcacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGA                 <  2:4549592/97‑1 (MQ=1)       cacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAG                <  1:3649725/98‑1 (MQ=1)       cacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAG                >  1:365563/4‑101 (MQ=1)       cacGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAG                >  1:2065742/4‑101 (MQ=1)        acGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGC               >  2:2766028/3‑101 (MQ=1)        acGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGC               >  1:760688/3‑101 (MQ=1)         cGCATTTCCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  1:511801/100‑1 (MQ=0)         cGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:2345066/100‑1 (MQ=1)         cGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:2811199/100‑1 (MQ=1)         cGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCG              >  2:3742984/2‑101 (MQ=1)          GCAGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             <  1:871063/101‑1 (MQ=1)          GCAGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             <  1:4430899/101‑1 (MQ=1)          GCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             >  1:1822421/1‑101 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACg           >  2:3487898/1‑100 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg           >  1:1143537/1‑100 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgt          <  1:4591596/101‑3 (MQ=1)              TTTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtg         <  1:4471838/101‑4 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgc        >  2:2337729/1‑97 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgc        >  2:2955621/1‑97 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACgggcgg      >  1:253318/1‑95 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACgtgcgag     >  2:4053094/1‑94 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgag     <  2:363785/101‑8 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgag     <  1:3028630/101‑8 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgag     >  1:3056539/1‑94 (MQ=0)                  GATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgag     >  2:110012/1‑94 (MQ=0)                   ATCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACgtgcgagg    >  1:3482606/1‑93 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgaggg   <  1:1213048/101‑10 (MQ=0)                     CCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgagggc  <  2:2743125/101‑11 (MQ=0)                     CCACGCCCCCGCGGGGGGAGCGACGGGCGGGTCCGTCAGCCATAGGCCCGCGCCGCATTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgtgcgagggc  >  1:89064/1‑91 (MQ=0)                                              ||||||||||||||||||||||||||||||||||                                           CCCACGAAAGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG............................................................................  <  NC_014034/1396550‑1396506 ...............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCCAGCAGGAT  <  NC_014034/1434381‑1434340 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG