New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1395999	165 (1.040)	54 (0.340)	2/134	30.9	0.24	intergenic (+811/‑120)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1397567 =	175 (0.740)					coding (1449/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

CAGTGGACTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCG..............................................................................  >  NC_014034/1395955‑1395999 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCCGCGGATCGG  >  NC_014034/1397567‑1397611                                              |||||||||||||||||||||||||||||||||                                              tcaagattcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTG                        >  2:605887/11‑101 (MQ=1)  caagattcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGG                       <  2:3194019/92‑1 (MQ=1)  caagattcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGG                       <  1:3209641/92‑1 (MQ=1)  caagattcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGG                       <  1:2860000/92‑1 (MQ=1)   aagattcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGA                      >  2:4072194/9‑101 (MQ=1)      attcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                   <  1:3400467/96‑1 (MQ=1)       ttcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                  >  1:2222085/5‑101 (MQ=1)       ttcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                  >  1:2635635/5‑101 (MQ=1)        tcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 <  2:439538/98‑1 (MQ=1)        tcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 >  1:1929326/4‑101 (MQ=1)        tcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 <  1:1535494/98‑1 (MQ=1)        tcaGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 >  1:3856527/4‑101 (MQ=1)         caGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                <  1:2800545/99‑1 (MQ=1)         caGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                >  1:4535998/3‑101 (MQ=1)         caGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGGGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                >  1:1503479/3‑101 (MQ=1)         caGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATAGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCCCGGGGGCGTGGATCGGAA                >  2:760971/3‑101 (MQ=0)          aGTNGNTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC               <  1:1314756/100‑1 (MQ=1)          aGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC               >  2:2796313/2‑101 (MQ=32)           GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA              <  2:1076338/101‑1 (MQ=1)           GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA              <  2:708896/101‑1 (MQ=1)            TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAc             <  1:3443481/101‑2 (MQ=1)            TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAc             <  2:394976/101‑2 (MQ=1)             CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTCAGGCCGGTGGTCGCTCCCCCCCCGGGGGCGTGGATCGAAcgacc            >  1:3131705/1‑96 (MQ=0)             CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAcc            >  1:3511552/1‑99 (MQ=1)             CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAcc            >  1:2890673/1‑99 (MQ=1)             CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGACGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAcc            >  1:566111/1‑99 (MQ=1)              GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCC           >  1:416133/1‑101 (MQ=1)              GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCC           >  1:535910/1‑101 (MQ=1)               ccCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCG          <  2:3285940/99‑1 (MQ=1)               ccCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCG          <  2:3645967/99‑1 (MQ=1)               CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCG          >  2:2501011/1‑101 (MQ=1)               CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCG          >  1:1627564/1‑101 (MQ=1)               CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCG          <  1:4326623/101‑1 (MQ=1)               CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCG          >  1:4012192/1‑101 (MQ=1)                TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGg         >  1:732437/1‑100 (MQ=1)                TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGg         >  2:129795/1‑100 (MQ=1)                TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGGGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGg         >  2:4592278/1‑100 (MQ=0)                TCCCCCCGCGGGGGCGTGGATAGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGg         >  1:2642608/1‑100 (MQ=0)                 CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgc        >  2:3881684/1‑99 (MQ=1)                 CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgc        >  2:2781279/1‑99 (MQ=1)                 CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgc        >  2:2698902/1‑99 (MQ=1)                 CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgc        <  1:4104686/101‑3 (MQ=1)                 CCCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgc        >  1:4333310/1‑99 (MQ=1)                  CCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcg       <  1:3368537/101‑4 (MQ=1)                  CCCCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcg       >  1:1403224/1‑98 (MQ=1)                    CCCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgcc     >  2:1878752/1‑96 (MQ=0)                     CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccg    <  1:3249901/101‑7 (MQ=0)                     CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccg    <  2:1868317/101‑7 (MQ=0)                     CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccg    <  1:1029870/101‑7 (MQ=0)                     CCGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccc    >  1:2768590/1‑95 (MQ=0)                      CGCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccgc   <  1:948913/101‑8 (MQ=0)                       GCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccgca  <  1:3209574/101‑9 (MQ=0)                       GCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccgca  <  1:999628/101‑9 (MQ=0)                       GCGGGGGCGTGGATCGAAACTCGGCAAGGACATCGCCGATCTGGGTAAGGCCGGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCGgcgccgca  <  1:1578890/101‑9 (MQ=0)                                              |||||||||||||||||||||||||||||||||                                              CAGTGGACTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCG..............................................................................  >  NC_014034/1395955‑1395999 ..............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCCGCGGATCGG  >  NC_014034/1397567‑1397611 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG