New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1395665	179 (1.160)	62 (0.400)	14/130	16.4	0.25	intergenic (+477/‑454)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1396903 =	192 (0.810)					coding (785/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

CGCGGGGCGAAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA..............................................................................  >  NC_014034/1395620‑1395665 .................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAGCCTGCGCGG  >  NC_014034/1396903‑1396945                                               |||||||||||||||||||||||||||||||||||                                            ggcgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGC                         <  2:2337909/91‑1 (MQ=0) agctccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGC                         <  1:778089/91‑1 (MQ=0) agcgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGC                         <  2:344807/91‑1 (MQ=0) agcgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGC                         <  2:1377013/91‑1 (MQ=0)  gcgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCG                        <  1:4385259/92‑1 (MQ=0)   cgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGT                       <  1:3114525/93‑1 (MQ=0)   cgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGT                       <  1:1550738/93‑1 (MQ=0)   cgccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGT                       <  2:2343916/93‑1 (MQ=0)    gccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTG                      <  2:1584295/94‑1 (MQ=0)     ccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGG                     >  1:1694343/7‑101 (MQ=0)     ccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGG                     <  2:1147668/95‑1 (MQ=0)     ccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGG                     <  1:806117/95‑1 (MQ=0)     ccatcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGG                     <  2:3888619/95‑1 (MQ=0)      catcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGg                    >  2:3250172/6‑100 (MQ=0)      catcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGA                    <  1:474529/96‑1 (MQ=1)       atcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  2:2583557/97‑1 (MQ=1)       atcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   >  2:1412737/5‑101 (MQ=1)       atcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   >  2:2856420/5‑101 (MQ=1)       atcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  1:234407/97‑1 (MQ=1)       atcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGAT                   <  1:1152879/97‑1 (MQ=1)        tcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATC                  >  1:4320376/4‑101 (MQ=1)        tcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  2:3922464/98‑1 (MQ=1)        tcgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATC                  <  1:1763941/98‑1 (MQ=1)         cgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:3916306/3‑101 (MQ=1)         cgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  1:3779748/3‑101 (MQ=1)         cgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  2:2500938/3‑101 (MQ=1)         cgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 >  2:1094777/3‑101 (MQ=1)         cgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCG                 <  2:1368405/99‑1 (MQ=1)         cgAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCACCCCGCGGGGGCGTGGAGCG                 >  2:595788/3‑101 (MQ=0)          gAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                >  2:1944525/2‑101 (MQ=1)          gAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGA                >  1:1227347/2‑101 (MQ=1)           AGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               >  2:495057/1‑101 (MQ=1)           AGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA               <  1:2839753/101‑1 (MQ=1)            GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA              <  2:2860061/101‑1 (MQ=1)            GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA              <  1:4127270/101‑1 (MQ=1)            GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA              <  1:3785439/101‑1 (MQ=1)            GCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGGGGATCGAAA              >  2:3968801/1‑101 (MQ=1)             CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             <  1:190012/101‑1 (MQ=1)             CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC             >  1:3507245/1‑101 (MQ=1)              GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA            >  2:847278/1‑101 (MQ=1)              GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA            >  1:294467/1‑101 (MQ=1)              GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA            >  1:2982931/1‑101 (MQ=1)               TCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGGTCGAAACAa           >  1:4295948/1‑100 (MQ=1)               TCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGGGGATCGAAACAa           >  1:297568/1‑100 (MQ=1)                CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGTGGCTGCGGTCCCTCCCCCCGCGGGGGCGTGGGTCGAAACAaa          >  2:3241136/1‑99 (MQ=0)                CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaa          >  2:3931156/1‑99 (MQ=1)                CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaa          >  1:717802/1‑99 (MQ=1)                CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaa          <  1:1252647/101‑3 (MQ=1)                CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaa          >  1:2841537/1‑99 (MQ=1)                CGCGCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaa          <  1:80453/101‑3 (MQ=1)                CGCCCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaa          <  2:4499054/101‑3 (MQ=1)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaa         <  1:2129493/101‑4 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaa        <  1:1532140/101‑5 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaa        <  2:2679666/101‑5 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaa        <  2:2640752/101‑5 (MQ=1)                   TCCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaag       >  2:2120099/1‑96 (MQ=1)                    CCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaagc      >  1:596667/1‑95 (MQ=0)                    CCCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaagc      <  2:2064852/101‑7 (MQ=0)                     CCCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaagcc     >  2:4235921/1‑94 (MQ=0)                      CCCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaagccg    >  2:2576132/1‑93 (MQ=0)                       CCCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaagccgc   <  2:301723/101‑10 (MQ=0)                        CCGCGGGGGCGTGGATCGAAACACCAATGCCGAAGCCAAGGCCGCAGCAGCGGCTGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAaaaagccgcc  >  2:4275058/1‑91 (MQ=0)                                               |||||||||||||||||||||||||||||||||||                                            CGCGGGGCGAAGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA..............................................................................  >  NC_014034/1395620‑1395665 .................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAGCCTGCGCGG  >  NC_014034/1396903‑1396945 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 38 ≤  ATCG