New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1397903 =	144 (0.980)	47 (0.320)	3/130	27.2	0.30	intergenic (+207/+1691)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
	?	NC_014034	= 1434446	80 (0.350)					intergenic (‑225/‑733)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CTCCCATAGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC..............................................................................  <  NC_014034/1397944‑1397903 .............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACAAGGTTGACGC  <  NC_014034/1434446‑1434404                                           |||||||||||||||||||||||||||||||||||                                            gccctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGG                     >  2:1257717/11‑101 (MQ=0)  ccctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGG                    <  2:1938082/92‑1 (MQ=0)   cctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAGGTTTCGATCCACGCCCCCGCGGGGGG                   >  1:3735235/9‑101 (MQ=12)   cctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGG                   >  1:959962/9‑101 (MQ=0)   cctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGG                   <  1:495044/93‑1 (MQ=0)    ctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGg                  >  2:1206801/8‑100 (MQ=0)    ctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGA                  <  2:3734982/94‑1 (MQ=0)    ctcatagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGA                  <  2:2805164/94‑1 (MQ=0)      catagtTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGC                <  2:1589147/95‑1 (MQ=0)      catagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGggg                >  2:120259/6‑98 (MQ=0)      catagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGg                >  1:4162221/6‑100 (MQ=0)      catagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGC                <  2:1287393/96‑1 (MQ=1)       atagGTTTCGATCCACGCCCCCGCGGGGGGAGCGCCGATCGAGCCCGGCCGATTGCGGAACTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               <  1:762208/97‑1 (MQ=0)       atagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGGGCG               >  2:2621083/5‑101 (MQ=0)       atagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               >  2:2648117/5‑101 (MQ=1)       atagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               >  1:4131833/5‑101 (MQ=1)       atagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               >  1:523838/5‑101 (MQ=1)       atagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               >  2:70453/5‑101 (MQ=1)        tagGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGc              >  1:583479/4‑100 (MQ=1)        tagGTTGCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGA              <  2:1509462/98‑1 (MQ=0)         agGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGGGCGAC             >  1:1866704/3‑101 (MQ=1)          gGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACc            >  2:3694717/2‑100 (MQ=1)          gGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACc            >  1:3510966/2‑100 (MQ=1)           GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACca           <  1:692998/101‑3 (MQ=11)           GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACca           >  1:3267875/1‑99 (MQ=11)           GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACca           >  1:2262273/1‑99 (MQ=11)            ttgCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAG          <  2:3778344/98‑1 (MQ=14)            TTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAG          >  2:1246216/1‑101 (MQ=31)            TTTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAG          >  2:3357659/1‑101 (MQ=31)             TTCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGc         >  1:3182794/1‑100 (MQ=32)              TCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcg        <  2:2000211/101‑3 (MQ=17)              TCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcg        >  1:3879924/1‑99 (MQ=17)              TCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcg        >  1:1872863/1‑99 (MQ=17)              TCGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcg        >  1:100076/1‑99 (MQ=17)               CGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTTGATCCACGCCCCCGCGGGGGGAGCGACCAGcgc       >  2:833335/1‑98 (MQ=17)               CGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgc       >  1:861278/1‑98 (MQ=17)               CGATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgc       >  1:268709/1‑98 (MQ=17)                GATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcg      >  2:3560021/1‑97 (MQ=17)                 ATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgc     <  1:1433172/101‑6 (MQ=17)                 ATCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgc     >  1:1048791/1‑96 (MQ=17)                  TCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcaacgcgca    >  2:880848/1‑92 (MQ=2)                  TCCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcccggc    <  2:330869/101‑7 (MQ=17)                   CCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgcca   >  2:3077343/1‑94 (MQ=12)                   CCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgcaa   >  1:826368/1‑94 (MQ=12)                   CCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgcaa   >  1:2758915/1‑94 (MQ=12)                   CCACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgcaa   <  2:3669242/101‑8 (MQ=12)                    CACGCCCCCGCGGGGGGAGCGACGATCGAGCCCGGCCGATTGCGGATCTGGTCATCAAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGcgcgcaat  <  2:486408/101‑9 (MQ=12)                                           |||||||||||||||||||||||||||||||||||                                            CTCCCATAGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC..............................................................................  <  NC_014034/1397944‑1397903 .............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACAAGGTTGACGC  <  NC_014034/1434446‑1434404 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG