New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1396028 =	197 (1.200)	48 (0.290)	12/138	18.5	0.22	intergenic (+840/‑91)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1396198	143 (0.600)					coding (80/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

CAGATGCGCCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGG.............................................................................  <  NC_014034/1396074‑1396028 ..............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGTGGCGGCG  <  NC_014034/1396198‑1396153                                                |||||||||||||||||||||||||||||||                                               tgatcatcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGG                         <  1:3618365/91‑1 (MQ=2)    tcatcgaTGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                      <  2:4581688/94‑1 (MQ=2)    tcatcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                      >  2:4403397/8‑101 (MQ=11)    tcatcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                      >  2:3988013/8‑101 (MQ=11)    tcatcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                      <  1:2392601/94‑1 (MQ=11)    tcatcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGGGTTTCGATCCACGCCCCCGCGGGGGG                      >  1:3939855/8‑101 (MQ=2)    tcatcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGGGTTTCGATCCACGCCCCCGCGGGGGG                      >  1:2873825/8‑101 (MQ=2)     catcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGA                     >  1:307547/7‑101 (MQ=11)      atcgaTGTTTCGCTCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAG                    <  2:2148083/96‑1 (MQ=2)      atcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAG                    >  2:3923477/6‑101 (MQ=11)       tcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGC                   >  1:4013149/5‑101 (MQ=11)       tcgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGC                   <  1:1260162/97‑1 (MQ=11)        cgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                  <  2:4012907/98‑1 (MQ=11)        cgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                  <  1:4575518/98‑1 (MQ=11)        cgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                  >  1:4218422/4‑101 (MQ=11)        cgaTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                  >  2:819338/4‑101 (MQ=11)          aTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                >  2:859787/2‑101 (MQ=1)           TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG               <  1:2524317/101‑1 (MQ=1)           TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG               >  2:3326317/1‑101 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGGGCGAGGC              >  1:10346/1‑101 (MQ=0)             TTTCGATCTACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGCTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCA             <  2:2423521/101‑1 (MQ=0)             TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCA             <  2:1916127/101‑1 (MQ=1)              TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG            <  1:778073/101‑1 (MQ=1)              TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG            <  2:420200/101‑1 (MQ=1)              TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG            >  1:187125/1‑101 (MQ=1)               TCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGC           >  1:2432820/1‑101 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCG          >  1:409229/1‑101 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCG          >  1:1561537/1‑101 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCG          >  2:3246863/1‑101 (MQ=1)                 gaggcgCGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGg         <  1:4710725/95‑2 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACGCAGCGg         >  1:1784116/1‑100 (MQ=1)                 GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGg         >  1:2379125/1‑100 (MQ=1)                  ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgc        >  2:4047124/1‑99 (MQ=1)                   TCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgca       >  2:4672702/1‑98 (MQ=1)                   TCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgca       >  2:4154619/1‑98 (MQ=1)                   TCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgca       <  2:3658365/101‑4 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcac      >  2:4441580/1‑97 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcac      >  2:926689/1‑97 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcac      <  1:173991/101‑5 (MQ=1)                     CACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacc     <  1:3836774/101‑6 (MQ=1)                     CACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacc     <  1:1633061/101‑6 (MQ=1)                     CACGCCCCCGCGGGGGGAGCGAAGCGGTATCGGCGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacc     <  1:4076927/101‑6 (MQ=0)                      ACGCCCCCGCGGGGGGAGCGCCGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacca    <  2:3166966/101‑7 (MQ=0)                      ACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacca    >  2:370319/1‑95 (MQ=0)                      ACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacca    >  1:100425/1‑95 (MQ=0)                       CGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccag   >  2:238878/1‑94 (MQ=0)                        GCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccaga  <  1:4673756/101‑9 (MQ=0)                        GCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccaga  <  1:284456/101‑9 (MQ=0)                                                |||||||||||||||||||||||||||||||                                               CAGATGCGCCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGG.............................................................................  <  NC_014034/1396074‑1396028 ..............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGTGGCGGCG  <  NC_014034/1396198‑1396153 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG