New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397131	139 (0.960)	48 (0.330)	7/128	22.9	0.30	coding (1013/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1434813 =	86 (0.380)					intergenic (‑592/‑366)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CCCCCCGCGGGGGCGTGGATCGAAACTGCCGTCTTGAGTGATGGGGCGCGAGCACATGTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC................................................................................  >  NC_014034/1397040‑1397131 ................................................................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGAAAACCGC  >  NC_014034/1434813‑1434856                                                                                             ||||||||||||||||||||||||||||||||||||                                             CCCCCCGCGGGGGCGTGGATCGAAACTGCCGTCTTGAGTGATGGGGCGCGAGCACATGCCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCcccacctc                                                                         >  2:3737447/1‑93 (MQ=0)                                                 ccgggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCG                         <  2:494992/91‑1 (MQ=0)                                                 ccgggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCG                         <  1:3916107/91‑1 (MQ=0)                                                  cgggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGg                        >  1:988666/10‑100 (MQ=0)                                                  cgggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGT                        <  2:2620542/92‑1 (MQ=0)                                                   gggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTG                       >  2:1007626/9‑101 (MQ=0)                                                   gggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTG                       <  1:916614/93‑1 (MQ=0)                                                   gggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTG                       <  1:2550843/93‑1 (MQ=0)                                                   gggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTG                       <  2:3687143/93‑1 (MQ=0)                                                   gggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTG                       >  2:3743997/9‑101 (MQ=0)                                                   gggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCNCCCCCCGCGGGGGCGTG                       >  2:1749389/9‑101 (MQ=0)                                                    ggctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGGGG                      >  1:2369543/8‑101 (MQ=0)                                                     gctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGA                     >  2:2621549/7‑101 (MQ=0)                                                     gctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGA                     <  1:1938211/95‑1 (MQ=0)                                                     gctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGA                     >  2:56384/7‑101 (MQ=0)                                                      ctcgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGAT                    >  2:1682245/6‑101 (MQ=1)                                                        cgaTCGTCGCTCCGCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCCGGGGCGTGGATCG                  >  1:2985795/4‑101 (MQ=0)                                                        cgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  1:3918276/98‑1 (MQ=1)                                                        cgaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  1:4019023/98‑1 (MQ=1)                                                        cgaTCGTCGCCCCCCCCGGGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  1:3117374/98‑1 (MQ=0)                                                         gaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                 >  1:1667870/3‑101 (MQ=1)                                                          aTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                <  2:4081690/100‑1 (MQ=1)                                                          aTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                <  2:179521/100‑1 (MQ=1)                                                            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGGCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGGTCGAAAC              >  1:154387/1‑101 (MQ=0)                                                            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              <  1:1490834/101‑1 (MQ=1)                                                            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              >  2:528679/1‑101 (MQ=1)                                                             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA             >  1:2845997/1‑101 (MQ=1)                                                              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT            >  1:1050776/1‑101 (MQ=1)                                                              TCGCCCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT            <  2:3141720/101‑1 (MQ=1)                                                               nnncCCNCCCGCGGGGGNGTGGAGCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATc           <  2:1829794/97‑2 (MQ=0)                                                               CGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATc           >  2:3226649/1‑100 (MQ=1)                                                               CGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATc           <  1:561494/101‑2 (MQ=1)                                                                GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATca          >  2:1344831/1‑99 (MQ=1)                                                                GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATca          >  1:1178523/1‑99 (MQ=1)                                                                GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATca          <  2:4013093/101‑3 (MQ=1)                                                                GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATca          <  1:4028589/101‑3 (MQ=1)                                                                GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATca          <  2:297723/101‑3 (MQ=1)                                                                 CTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcag         >  2:523480/1‑98 (MQ=1)                                                                  cCCCCCCGCGGGGGCGTGGATCGAATCCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagc        <  1:3592749/100‑5 (MQ=1)                                                                  TCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagc        >  1:3568041/1‑97 (MQ=1)                                                                  TCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAAATcagc        >  2:1310785/1‑97 (MQ=1)                                                                   CCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagct       >  2:359510/1‑96 (MQ=1)                                                                   CCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagct       <  1:2797709/101‑6 (MQ=1)                                                                    CCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagctt      >  2:1816402/1‑95 (MQ=1)                                                                    CCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagctt      <  1:3221170/101‑7 (MQ=1)                                                                    CCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagctt      >  2:272432/1‑95 (MQ=1)                                                                      CCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagcttga    >  2:2864131/1‑93 (MQ=1)                                                                       CCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagcttgac   >  2:1151090/1‑92 (MQ=1)                                                                        CGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcagcttgacc  <  2:3158712/101‑11 (MQ=1)                                                                                             ||||||||||||||||||||||||||||||||||||                                             CCCCCCGCGGGGGCGTGGATCGAAACTGCCGTCTTGAGTGATGGGGCGCGAGCACATGTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC................................................................................  >  NC_014034/1397040‑1397131 ................................................................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGAAAACCGC  >  NC_014034/1434813‑1434856 Base quality scores:  ATCG  < 3 ≤  ATCG  < 16 ≤  ATCG  < 24 ≤  ATCG  < 32 ≤  ATCG  < 39 ≤  ATCG