New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397532	226 (1.440)	42 (0.270)	7/132	25.2	0.17	coding (1414/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1434878 =	171 (0.720)					intergenic (‑657/‑301)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CCCTGCACCACCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA............................................................................  >  NC_014034/1397487‑1397532 ................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCGTGATGCGT  >  NC_014034/1434878‑1434919                                               ||||||||||||||||||||||||||||||||||                                           gtggatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCG                       >  2:1707213/11‑101 (MQ=0)  tggatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGg                      >  1:911059/10‑100 (MQ=0)  tggatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGT                      >  2:2154620/10‑101 (MQ=0)   ggatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTG                     >  1:4405421/9‑101 (MQ=0)   ggatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTG                     >  2:2988851/9‑101 (MQ=0)   ggatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGCCGCTCCCCCCGCGGGGGCGTG                     <  1:3438958/93‑1 (MQ=0)    gatcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGG                    >  1:2302473/8‑101 (MQ=0)     gtcccgCCGGTCGCTCCCGCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGA                   <  1:1603174/95‑1 (MQ=0)     atcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGA                   >  1:1601526/7‑101 (MQ=0)     atcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGA                   >  2:240526/7‑101 (MQ=0)      tcccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGAT                  <  1:2154770/96‑1 (MQ=1)        ccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCG                <  1:1881713/98‑1 (MQ=1)        ccgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCG                <  2:2653565/98‑1 (MQ=1)         cgCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGA               >  2:3724353/3‑101 (MQ=1)          gCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              <  1:1034456/100‑1 (MQ=1)           CCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             <  1:4353667/101‑1 (MQ=1)           CCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             >  1:3243559/1‑101 (MQ=1)           CCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             <  1:264612/101‑1 (MQ=1)           CCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             <  2:3071136/101‑1 (MQ=1)           CCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             <  1:1806798/101‑1 (MQ=1)           CCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             <  1:1034040/101‑1 (MQ=1)            CGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGTGGGCGTGGATCGAAAC            <  1:4486819/101‑1 (MQ=1)            CGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            <  1:1883622/101‑1 (MQ=1)            CGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            <  1:3897068/101‑1 (MQ=1)            CGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            >  2:2026198/1‑101 (MQ=1)            CGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            >  1:1380751/1‑101 (MQ=1)             GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACg           >  1:394476/1‑100 (MQ=1)             GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACg           >  1:1834991/1‑100 (MQ=1)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgt       >  1:4491855/1‑96 (MQ=1)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgt       >  2:1833530/1‑96 (MQ=1)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgt       >  2:2296662/1‑96 (MQ=1)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgt       <  2:579777/101‑6 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgta      <  1:4246383/101‑7 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgta      <  2:1915654/101‑7 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgta      <  1:3299739/101‑7 (MQ=1)                   cCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtag     <  1:3486143/100‑8 (MQ=0)                   cCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtag     <  1:103860/100‑8 (MQ=0)                   TCCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtag     >  2:3662002/1‑94 (MQ=0)                    CCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtaga    >  1:3931295/1‑93 (MQ=0)                    CCCCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtaga    <  1:2719672/101‑9 (MQ=0)                    CCCCCCGCAGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtaga    >  2:4522955/1‑93 (MQ=0)                      CCCCGCGGGGGCGTGGATCGAAACATCAGCTTGACCGCATCGAAGCTGGTCACATCGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACggcgtagatc  <  1:2253792/101‑11 (MQ=0)                                               ||||||||||||||||||||||||||||||||||                                           CCCTGCACCACCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA............................................................................  >  NC_014034/1397487‑1397532 ................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCGTGATGCGT  >  NC_014034/1434878‑1434919 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG