New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397598	152 (0.980)	39 (0.250)	7/130	24.9	0.20	coding (1480/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1434349 =	164 (0.690)					intergenic (‑128/‑830)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAACCCGATCATGGCCCGCCTCAGCGCCGCGCTGACGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC...............................................................................  >  NC_014034/1397499‑1397598 .......................................................................................................................................GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGTCTCCGCTCT  >  NC_014034/1434349‑1434392                                                                                                     |||||||||||||||||||||||||||||||||||                                             GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAACCCGATCATGGCCCGCCTCAGCGCCGCGCTGACGTCGCTCCCCCCCCGGGGGCGTGGATCGAAACC                                                                                >  1:1224676/1‑101 (MQ=1)                                                           gggctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTG                      >  2:3485885/10‑101 (MQ=0)                                                              ctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  1:3718265/95‑1 (MQ=0)                                                              ctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  2:1565005/95‑1 (MQ=0)                                                               tcggtCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  2:2205582/96‑1 (MQ=1)                                                               tcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  2:1062295/96‑1 (MQ=1)                                                                cgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCGCCGCGGGGGCGTGGATCG                 >  2:1603069/5‑101 (MQ=0)                                                                cgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  2:3109446/97‑1 (MQ=1)                                                                cgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:131694/5‑101 (MQ=1)                                                                cgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  2:3896783/5‑101 (MQ=1)                                                                cgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  2:2994246/97‑1 (MQ=1)                                                                 gatCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                <  1:2067976/98‑1 (MQ=0)                                                                  atCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               >  1:3661711/3‑101 (MQ=1)                                                                  atCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCCCTCCCCCCGCGGGGGCGTGGATCGAA               >  2:2184941/3‑101 (MQ=1)                                                                  atCGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               <  1:1960256/99‑1 (MQ=1)                                                                   tCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA              <  1:2177997/100‑1 (MQ=1)                                                                    CGTCGCTCCCCCCTCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGCGCGTGGATCGAAAC             >  2:3096506/1‑101 (MQ=0)                                                                    CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  1:2199647/101‑1 (MQ=1)                                                                    CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATAGAAAC             >  2:2526521/1‑101 (MQ=1)                                                                      gCGCCCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACat           <  1:4301652/100‑3 (MQ=1)                                                                       CGCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATC          >  2:3688872/1‑101 (MQ=1)                                                                       CGCCCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATC          <  1:1670170/101‑1 (MQ=1)                                                                        GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCa         >  2:4345657/1‑100 (MQ=1)                                                                        GCTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCa         >  1:132456/1‑100 (MQ=1)                                                                         CTCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCag        <  2:4370857/101‑3 (MQ=1)                                                                          cCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagc       <  2:3317078/100‑4 (MQ=1)                                                                          cCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagc       <  1:935356/100‑4 (MQ=1)                                                                          TCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGTTCGAAACATCagc       >  1:2549952/1‑98 (MQ=1)                                                                          TCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagc       >  2:2371261/1‑98 (MQ=1)                                                                          TCCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagc       >  1:579838/1‑98 (MQ=1)                                                                           CCCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagct      >  1:333876/1‑97 (MQ=1)                                                                            CCCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagctt     <  1:1546070/101‑6 (MQ=1)                                                                             CCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttg    <  1:3774409/101‑7 (MQ=1)                                                                             CCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttg    <  1:279126/101‑7 (MQ=1)                                                                             CCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttg    <  2:3797682/101‑7 (MQ=1)                                                                             CCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttg    <  1:191034/101‑7 (MQ=1)                                                                             CCCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttg    >  2:756037/1‑95 (MQ=1)                                                                              CCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttga   <  1:2427068/101‑8 (MQ=1)                                                                              CCCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttga   >  1:1304410/1‑94 (MQ=1)                                                                               CCGCGGGGGCGTGGATCGAAACCTATGAGGGCTGGCGGCCCGGTCGTGGATCCCGCCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCagcttgac  <  1:3786518/101‑9 (MQ=1)                                                                                                     |||||||||||||||||||||||||||||||||||                                             GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAACCCGATCATGGCCCGCCTCAGCGCCGCGCTGACGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC...............................................................................  >  NC_014034/1397499‑1397598 .......................................................................................................................................GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGTCTCCGCTCT  >  NC_014034/1434349‑1434392 Base quality scores:  ATCG  < 3 ≤  ATCG  < 16 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG