New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395434 =	179 (1.300)	38 (0.280)	8/130	20.1	0.19	intergenic (+246/‑685)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1398002	140 (0.660)					intergenic (+306/+1592)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GCCAAAGCGGCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC.............................................................................  <  NC_014034/1395479‑1395434 .................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACTTTTGAAGGT  <  NC_014034/1398002‑1397961                                               |||||||||||||||||||||||||||||||||||                                           atttgatcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGC                        <  2:4050556/91‑1 (MQ=0)  tttgatcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCG                       >  1:1495540/10‑101 (MQ=0)   ttgatcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGG                      <  2:2891494/93‑1 (MQ=0)    tgatcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGG                     >  1:2699718/8‑101 (MQ=0)    tgatcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGG                     >  1:3298951/8‑101 (MQ=0)      atcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGG                   >  1:1085694/6‑101 (MQ=1)      atcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGG                   >  2:3743034/6‑101 (MQ=1)       tcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                  <  2:4146519/97‑1 (MQ=1)       tcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:2880808/97‑1 (MQ=1)       tcatCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:3048408/97‑1 (MQ=1)        catCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGg                 >  2:1123935/4‑100 (MQ=1)        catCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGg                 >  2:543381/4‑100 (MQ=1)        catCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGg                 >  2:1819103/4‑100 (MQ=1)        catCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGg                 >  2:2424900/4‑100 (MQ=1)        catCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGA                 <  1:4018302/98‑1 (MQ=1)         atCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAG                >  2:1734567/3‑101 (MQ=1)         atCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAG                <  2:606040/99‑1 (MQ=1)           cggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCTCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:53898/98‑1 (MQ=1)           CGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGAGTTTCGATCCACGCCCCCGCGGGGGNGGCn              >  1:3196898/1‑100 (MQ=0)            GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCTGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             <  1:1500181/101‑1 (MQ=1)            GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             >  1:595657/1‑101 (MQ=1)            GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             >  1:3421885/1‑101 (MQ=1)             gTGTGTCGATCCACGCCGCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            <  2:3610652/100‑1 (MQ=0)             ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            <  1:101328/101‑1 (MQ=1)             ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            <  1:1932008/101‑1 (MQ=1)             ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            >  1:3674910/1‑101 (MQ=1)              ttTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg           <  2:3298710/99‑2 (MQ=1)                TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgca         >  1:3477866/1‑98 (MQ=1)                TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgca         <  1:2362919/101‑4 (MQ=1)                 TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcag        <  2:1804106/101‑5 (MQ=1)                 TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcag        >  1:4104645/1‑97 (MQ=1)                  TCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagc       >  1:3872994/1‑96 (MQ=1)                   CGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagcg      >  2:2039215/1‑95 (MQ=1)                    GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagcgg     >  2:3387133/1‑94 (MQ=1)                     ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagcggc    >  2:2750288/1‑93 (MQ=1)                     ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagcggc    >  1:3901565/1‑93 (MQ=1)                     ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagcggc    <  2:1021792/101‑9 (MQ=1)                       CCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgcagcggcac  <  1:1804649/101‑11 (MQ=1)                                               |||||||||||||||||||||||||||||||||||                                           GCCAAAGCGGCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC.............................................................................  <  NC_014034/1395479‑1395434 .................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACTTTTGAAGGT  <  NC_014034/1398002‑1397961 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG