New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1395466	213 (1.320)	60 (0.370)	3/132	23.1	0.24	intergenic (+278/‑653)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1396573 =	162 (0.660)					coding (455/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

GGTGATCAGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA.............................................................................  >  NC_014034/1395423‑1395466 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGATTTCGTCGC  >  NC_014034/1396573‑1396615                                             ||||||||||||||||||||||||||||||||||                                            taaggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTG                      <  2:212484/91‑1 (MQ=0) taaggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTG                      <  1:1606329/91‑1 (MQ=0)  aaggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGG                     <  1:108621/92‑1 (MQ=0)   aggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGA                    >  1:2083580/9‑101 (MQ=0)    ggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGAT                   >  1:4833911/8‑101 (MQ=1)    ggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  1:2028608/94‑1 (MQ=1)    ggccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  1:28874/94‑1 (MQ=1)     gccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  1:1988851/95‑1 (MQ=1)     gccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  1:4574011/95‑1 (MQ=1)     gccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  1:2483963/95‑1 (MQ=1)      ccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  1:4752711/96‑1 (MQ=1)      ccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:4553690/6‑101 (MQ=1)      ccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  1:4446630/96‑1 (MQ=1)      ccggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  1:3778561/96‑1 (MQ=1)       cggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGA                <  1:490431/97‑1 (MQ=1)       cggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGA                >  2:618979/5‑101 (MQ=1)        ggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGGGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               >  2:1945034/4‑101 (MQ=1)        ggtGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               <  2:4470856/98‑1 (MQ=1)         gtGGTCGCACCCCCAGCGGGGGCGTGGATCGAACCACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA              <  1:4361551/99‑1 (MQ=0)          tGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  1:3168975/100‑1 (MQ=1)          tGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  2:1546071/100‑1 (MQ=1)          tGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  1:3772024/100‑1 (MQ=1)          tGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  2:2170493/100‑1 (MQ=1)          tGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  2:2790760/100‑1 (MQ=1)           cGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt            <  2:664653/100‑2 (MQ=1)           GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt            <  2:3598721/101‑2 (MQ=1)           GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt            <  1:223518/101‑2 (MQ=1)           GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt            >  1:4161174/1‑100 (MQ=1)           GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt            <  1:3451392/101‑2 (MQ=1)            GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACta           <  1:4826273/101‑3 (MQ=1)            GTCGCCCCCCCCGCGGGGGCGTGGATCGAAACACCCTGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACta           <  2:4434227/101‑3 (MQ=0)             gCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTAT          <  2:1057343/100‑1 (MQ=1)             TCGCTCCGCCCGCGGGGGCGTGGATCGAAACTCCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTAT          <  2:4508980/101‑1 (MQ=0)             TCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTAT          >  2:310388/1‑101 (MQ=1)             TCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTAT          <  1:2871982/101‑1 (MQ=1)             TCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTAT          <  1:2016563/101‑1 (MQ=1)              CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATg         >  2:2544048/1‑100 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgc        >  1:2141749/1‑99 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgc        >  2:2400946/1‑99 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgc        >  2:1663262/1‑99 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgc        >  1:910194/1‑99 (MQ=1)               GCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgc        >  1:4978266/1‑99 (MQ=1)                CTCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgct       <  2:4982795/101‑4 (MQ=1)                 cCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      <  2:1410700/100‑5 (MQ=0)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      >  1:3270682/1‑97 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      >  1:4665167/1‑97 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      >  1:1176760/1‑97 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      >  1:4601225/1‑97 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      <  1:216669/101‑5 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      >  1:4451178/1‑97 (MQ=1)                 TCCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctg      <  1:2438192/101‑5 (MQ=1)                  CCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctgg     >  1:879297/1‑96 (MQ=0)                  CCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctgg     <  2:4805210/101‑6 (MQ=0)                  CCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctgg     <  2:4551078/101‑6 (MQ=0)                  CCCCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGGGGATCGAAACTATgctgg     >  1:4546155/1‑96 (MQ=0)                    CCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctggct   <  1:4903488/101‑8 (MQ=0)                    CCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctggct   >  1:3863349/1‑94 (MQ=0)                    CCCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctggct   <  2:1590595/101‑8 (MQ=0)                     CCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctggctc  <  1:1605103/101‑9 (MQ=0)                     CCCGCGGGGGCGTGGATCGAAACACCCGGCGCCGCAGCGAGTGCGTCTGGAACAGGATGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTATgctggctc  <  2:1431341/101‑9 (MQ=0)                                             ||||||||||||||||||||||||||||||||||                                            GGTGATCAGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA.............................................................................  >  NC_014034/1395423‑1395466 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGATTTCGTCGC  >  NC_014034/1396573‑1396615 Base quality scores:  ATCG  < 3 ≤  ATCG  < 17 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG