New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1395598	248 (0.830)	71 (0.240)	17/130	22.8	0.21	intergenic (+410/‑521)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	1397903 =	294 (0.640)					intergenic (+207/+1691)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GCCGGCCTGCTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC...............................................................................  >  NC_014034/1395555‑1395598 ...............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCTATGGGAGGC  >  NC_014034/1397903‑1397946                                             |||||||||||||||||||||||||||||||||||                                             tattgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                        >  1:5557325/9‑101 (MQ=255) tattgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                        >  1:8773558/9‑101 (MQ=255) tattgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGT                        >  1:3719606/9‑101 (MQ=255)  attgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                       >  2:5751822/8‑101 (MQ=255)  attgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTG                       >  2:1484367/8‑101 (MQ=255)   ttgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                      >  1:5435969/7‑101 (MQ=255)   ttgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGG                      <  1:4340579/95‑1 (MQ=255)    tgcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGGGGA                     >  2:5451363/6‑101 (MQ=255)    tgcgcGCTGGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGA                     <  1:5451548/96‑1 (MQ=255)     gcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                    <  2:6519324/97‑1 (MQ=255)     gcgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGAT                    <  2:1311343/97‑1 (MQ=255)      cgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC                   <  2:2664082/98‑1 (MQ=255)      cgcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATC                   <  1:4314716/98‑1 (MQ=255)       gcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  >  1:988784/3‑101 (MQ=255)       gcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  2:1417513/99‑1 (MQ=255)       gcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  2:2151039/99‑1 (MQ=255)       gcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  2:3964863/99‑1 (MQ=255)       gcGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCG                  <  2:6710254/99‑1 (MQ=255)        cGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                 >  2:4563281/2‑101 (MQ=255)        cGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                 <  1:5379076/100‑1 (MQ=255)         GCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                <  2:4165738/101‑1 (MQ=255)         GCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                <  1:7072750/101‑1 (MQ=255)         GCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                >  2:9165341/1‑101 (MQ=255)         GCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                >  1:2295475/1‑101 (MQ=255)          ctgGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               <  1:6209463/98‑1 (MQ=255)           tgGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              <  1:5258225/99‑1 (MQ=255)           tgGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              >  1:6352263/3‑101 (MQ=255)           tgGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              <  1:299392/99‑1 (MQ=255)           tgGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              >  1:3532616/3‑101 (MQ=255)           tgGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              <  1:8258904/99‑1 (MQ=255)            ggtccgcCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             <  2:3241688/94‑2 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             >  2:5000898/2‑100 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             <  1:2388754/100‑2 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             >  2:2794834/2‑100 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             >  2:2586619/2‑100 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             >  1:3672999/2‑100 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             >  1:8781230/2‑100 (MQ=255)            gGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACc             <  1:4926427/100‑2 (MQ=255)             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACct            <  1:230448/101‑3 (MQ=255)             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACct            >  1:7963429/1‑99 (MQ=255)             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACcc            >  2:5842104/1‑99 (MQ=255)              gCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACcta           <  2:8699856/100‑4 (MQ=255)              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACcta           <  1:8016012/101‑4 (MQ=255)              TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACcta           <  1:3065417/101‑4 (MQ=255)               CGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACctat          <  2:7072805/101‑5 (MQ=255)               CGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACctat          >  1:5905480/1‑97 (MQ=255)               CGCTCCCACCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACctat          <  2:1186990/101‑5 (MQ=255)                cCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATG        <  2:5390455/100‑1 (MQ=255)                GCTCCCCCCGCGGGGGCTTTGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATG        <  1:2206639/101‑1 (MQ=255)                GCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATG        <  1:1913433/101‑1 (MQ=255)                GCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATG        >  2:532018/1‑101 (MQ=255)                GCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATG        >  1:4936896/1‑101 (MQ=255)                GCTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATG        >  2:4748623/1‑101 (MQ=255)                 CTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGa       <  1:1194213/101‑2 (MQ=255)                 CTCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGa       >  2:5141143/1‑100 (MQ=255)                  TCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCTtgag       >  2:7234612/1‑97 (MQ=255)                  TCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGag      >  1:1870992/1‑99 (MQ=255)                  TCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGag      >  1:180250/1‑99 (MQ=255)                  TCCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGag      >  2:701559/1‑99 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     >  2:471506/1‑98 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     >  2:4350625/1‑98 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     >  1:6042129/1‑98 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     >  1:7416146/1‑98 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     >  2:556734/1‑98 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     >  2:1264097/1‑98 (MQ=255)                   CCCCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagg     <  1:3938278/101‑4 (MQ=255)                     CCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagggc   >  1:3040698/1‑96 (MQ=255)                     CCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagggc   <  2:1173308/101‑6 (MQ=255)                     CCCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagggc   <  2:9082836/101‑6 (MQ=255)                      CCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagggct  <  1:6810725/101‑7 (MQ=255)                      CCCGCGGGGGCGTGGATCGAAACTTGATGACCAGATCCGCAATCGGCCGGGCTCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC.CTATGagggct  <  1:4511616/101‑7 (MQ=255)                                             |||||||||||||||||||||||||||||||||||                                             GCCGGCCTGCTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC...............................................................................  >  NC_014034/1395555‑1395598 ...............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCTATGGGAGGC  >  NC_014034/1397903‑1397946 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 39 ≤  ATCG