New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395633 =	173 (1.100)	48 (0.310)	4/128	21.7	0.28	intergenic (+445/‑486)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1434578	76 (0.310)					intergenic (‑357/‑601)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

ACTACATGCAGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC..............................................................................  <  NC_014034/1395677‑1395633 .................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCTGCCCG  <  NC_014034/1434578‑1434537                                              ||||||||||||||||||||||||||||||||||||                                           cggtcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGC                        <  1:2914113/91‑1 (MQ=0)  ggtcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCG                       >  2:3858171/10‑101 (MQ=1)  ggtcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCG                       <  1:2364333/92‑1 (MQ=1)    tcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGG                     >  1:2289920/8‑101 (MQ=1)     caagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGG                    >  1:1034096/7‑101 (MQ=1)      aagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGG                   <  1:3995883/96‑1 (MQ=1)      aagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGG                   >  2:3366286/6‑101 (MQ=1)      aagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGACCTCATAGGTTTCGATCCACGCCCCCCCGGGGG                   >  2:1927528/6‑101 (MQ=0)       agctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:4549392/97‑1 (MQ=1)       agctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:4156019/97‑1 (MQ=1)        gctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGA                 <  1:4267449/98‑1 (MQ=1)         ctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGGCCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAG                <  2:3628349/99‑1 (MQ=1)         ctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAG                >  2:2608795/3‑101 (MQ=1)         ctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAG                <  2:612102/99‑1 (MQ=1)          tGATGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  1:1176253/100‑1 (MQ=1)          gGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  2:3910763/100‑1 (MQ=1)           GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:3439976/101‑1 (MQ=1)           GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:2148535/101‑1 (MQ=1)           GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG              >  1:1095739/1‑101 (MQ=1)           GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:4888231/101‑1 (MQ=1)           GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG              >  2:19006/1‑101 (MQ=1)            ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGGGCGc             >  1:410828/1‑100 (MQ=1)            ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             >  1:3343929/1‑101 (MQ=1)            ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             >  1:2308481/1‑101 (MQ=1)             TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGGGCGAC            >  1:1015311/1‑101 (MQ=1)             TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            >  2:3925431/1‑101 (MQ=1)              GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg           <  1:4765047/101‑2 (MQ=1)               TTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACga          >  2:2765245/1‑99 (MQ=1)                TTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat         <  1:4714612/101‑4 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGGGCGACgatc        >  1:4355455/1‑97 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatc        >  1:461787/1‑97 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatc        <  2:4500703/101‑5 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatc        >  1:45766/1‑97 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatc        >  1:1661333/1‑97 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgaca        >  2:3873942/1‑97 (MQ=1)                  cgtTCCCCGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcg       <  2:4696541/98‑6 (MQ=0)                  CGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcg       <  1:3718582/101‑6 (MQ=1)                  CGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcg       >  1:4911051/1‑96 (MQ=1)                   GATCCCCGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcga      <  1:964379/101‑7 (MQ=0)                   GATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcga      >  1:3711977/1‑95 (MQ=1)                    ATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgag     <  1:4173687/101‑8 (MQ=1)                    ATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgag     >  2:1016784/1‑94 (MQ=1)                     TCCCCGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgagc    <  1:1935027/101‑9 (MQ=0)                      CCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgagcc   <  1:4733074/101‑10 (MQ=0)                      CCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgagcc   <  1:1090477/101‑10 (MQ=0)                       CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgagccc  >  1:2273472/1‑91 (MQ=0)                       CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgagccc  <  1:19016/101‑11 (MQ=0)                       CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatcgagccc  <  2:2348981/101‑11 (MQ=0)                                              ||||||||||||||||||||||||||||||||||||                                           ACTACATGCAGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC..............................................................................  <  NC_014034/1395677‑1395633 .................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCTGCCCG  <  NC_014034/1434578‑1434537 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 32 ≤  ATCG  < 39 ≤  ATCG