New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395832 =	197 (1.180)	45 (0.270)	10/136	17.9	0.20	intergenic (+644/‑287)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1396269	173 (0.710)					coding (151/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

ATAGGCGGCGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...........................................................................  <  NC_014034/1395875‑1395832 ............................................................................GCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACAGCCAGAC  <  NC_014034/1396269‑1396227                                             ||||||||||||||||||||||||||||||||                                            ggaacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGG                    >  1:5050595/6‑101 (MQ=0) ggaacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGG                    >  1:4742067/6‑101 (MQ=0)  gaacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGG                   >  2:2973778/5‑101 (MQ=0)  gaacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGG                   <  2:4092243/97‑1 (MQ=0)  gaacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGG                   <  1:502182/97‑1 (MQ=0)   aacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGG                  >  2:1937698/4‑101 (MQ=0)   aacCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGG                  <  2:4221659/98‑1 (MQ=0)    acCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGG                 >  1:1738622/3‑101 (MQ=0)    acCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGG                 >  1:2869624/3‑101 (MQ=0)     cCGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGG                <  2:126286/100‑1 (MQ=0)      CGGCACGGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGA               <  2:3599480/101‑1 (MQ=0)      CGGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGA               <  2:1242367/101‑1 (MQ=0)       GGCACAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAG              >  2:2745538/1‑101 (MQ=0)        gcaCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGggg             >  2:4420336/4‑98 (MQ=0)        gcaCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGC             >  1:969074/4‑101 (MQ=0)        gcaCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGC             <  2:313165/98‑1 (MQ=0)         caCAGTTTCGATCCCCGCCCCCGGGGGGGGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCG            <  1:4352747/99‑1 (MQ=0)         caCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCG            <  1:3043166/99‑1 (MQ=1)          cCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA           <  2:2783919/100‑1 (MQ=1)          aCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGCGCGA           >  2:2031456/2‑101 (MQ=0)          aCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA           <  2:486166/100‑1 (MQ=1)          aCAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA           <  1:1298593/100‑1 (MQ=1)           CAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC          <  1:1969370/101‑1 (MQ=1)           CAGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC          <  2:968969/101‑1 (MQ=1)            AGTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACt         >  2:3982658/1‑100 (MQ=0)             GTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtc        <  2:2991131/101‑3 (MQ=14)             GTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtc        >  1:1077043/1‑99 (MQ=14)             GTTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtc        >  2:2815191/1‑99 (MQ=14)              TTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtcc       <  2:1141126/101‑4 (MQ=14)              TTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtcc       <  2:2974139/101‑4 (MQ=14)              TTTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtcc       <  1:1475075/101‑4 (MQ=14)               TTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      <  2:4787730/101‑5 (MQ=14)               TTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      >  2:1419041/1‑97 (MQ=14)               TTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      <  2:1204024/101‑5 (MQ=14)               TTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      >  1:3462882/1‑97 (MQ=14)               TTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      <  1:306412/101‑5 (MQ=14)               TTCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      >  1:1039178/1‑97 (MQ=14)               TTCGATCCACGCCCCCGCGGGGGGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccg      <  2:2767118/101‑5 (MQ=14)                TCGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgc     >  2:3424149/1‑96 (MQ=9)                TCGATACACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgt     >  2:1023047/1‑96 (MQ=9)                 CGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgtc    >  1:677178/1‑95 (MQ=9)                 CGATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgtc    >  1:162774/1‑95 (MQ=9)                  GATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgtcc   >  1:3243211/1‑94 (MQ=9)                  GATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgccc   >  2:2583568/1‑94 (MQ=9)                   ATCCACGCCCCCGCGGGGTGAGCGACATAGGTTGGCCCGGCGCCCGCCCCCATTGAAAGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACtccgtccc  <  2:124377/101‑9 (MQ=9)                                             ||||||||||||||||||||||||||||||||                                            ATAGGCGGCGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...........................................................................  <  NC_014034/1395875‑1395832 ............................................................................GCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACAGCCAGAC  <  NC_014034/1396269‑1396227 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 39 ≤  ATCG