New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1397766 =	0 (0.000)	31 (0.230)	2/130	25.9	1.00	intergenic (+70/+1828)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
	?	NC_014034	= 1434778	NA (NA)					intergenic (‑557/‑401)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

TTCGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC.............................................................................  <  NC_014034/1397865‑1397766 .......................................................................................................................................CGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCTGCCC  <  NC_014034/1434778‑1434737                                                                                                     |||||||||||||||||||||||||||||||||||                                           TTCGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                                                                              >  2:971388/1‑101 (MQ=1) TTCGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                                                                              >  2:4008087/1‑101 (MQ=1) TTCGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                                                                              <  1:1652140/101‑1 (MQ=1)   CGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGat                                                                            <  2:2462182/101‑3 (MQ=1)   CGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGat                                                                            >  1:2924127/1‑99 (MQ=1)    GATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatc                                                                           >  2:1455631/1‑98 (MQ=1)    GATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatc                                                                           <  2:729192/101‑4 (MQ=1)     ATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGatcg                                                                          <  1:4008347/101‑5 (MQ=0)     ATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcg                                                                          <  2:1497543/101‑5 (MQ=1)     ATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCtgg                                                                          >  2:2503213/1‑98 (MQ=1)      TCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcga                                                                         <  1:1650951/101‑6 (MQ=1)       CCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgag                                                                        <  1:2390147/101‑7 (MQ=0)       CCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgag                                                                        >  2:2362293/1‑95 (MQ=0)       CCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgag                                                                        >  2:3068910/1‑95 (MQ=0)        CACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgagc                                                                       <  2:2673782/101‑8 (MQ=0)          CGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgcgccc                                                                     >  1:1293957/1‑92 (MQ=0)          CGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgagccc                                                                     <  1:2031740/101‑10 (MQ=0)          CGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgagccc                                                                     <  2:3429242/101‑10 (MQ=0)          CGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGatcgagccc                                                                     >  1:3230029/1‑92 (MQ=0)                                                           tgtcagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGG                    <  1:509635/92‑1 (MQ=0)                                                           tgtcagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGG                    >  1:3862991/10‑101 (MQ=0)                                                           tgtcagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGG                    >  1:3223744/10‑101 (MQ=0)                                                            gtcagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGG                   <  1:3279536/93‑1 (MQ=0)                                                             tcagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGG                  <  2:1438207/94‑1 (MQ=0)                                                              cagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGG                 <  2:2927319/95‑1 (MQ=1)                                                              cagcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGG                 >  1:2122348/7‑101 (MQ=1)                                                                gcagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAG               <  2:2861610/97‑1 (MQ=1)                                                                 cagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGCGC              >  1:648318/4‑101 (MQ=0)                                                                 cagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGC              <  1:2438902/98‑1 (MQ=1)                                                                 cagCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGC              >  2:639350/4‑101 (MQ=1)                                                                  agCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCG             >  2:896233/3‑101 (MQ=1)                                                                    CGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC           <  2:3377662/101‑1 (MQ=1)                                                                     GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg          <  2:836257/101‑2 (MQ=1)                                                                     GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg          <  2:3618542/101‑2 (MQ=1)                                                                     GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACg          >  2:292905/1‑100 (MQ=1)                                                                      TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACga         <  2:4067721/101‑3 (MQ=1)                                                                      TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACga         <  1:1696140/101‑3 (MQ=1)                                                                       TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  2:3253669/101‑4 (MQ=1)                                                                       TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  2:2043874/101‑4 (MQ=1)                                                                       TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  2:1583620/101‑4 (MQ=1)                                                                       TTCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgat        <  1:3139733/101‑4 (MQ=1)                                                                        gCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgata       <  1:512400/100‑5 (MQ=1)                                                                        TCGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgata       <  2:2813122/101‑5 (MQ=1)                                                                         CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatag      >  2:3909026/1‑96 (MQ=1)                                                                         CGATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgataa      >  2:512343/1‑96 (MQ=1)                                                                          GATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagc     >  2:3689584/1‑95 (MQ=1)                                                                          GATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagc     >  1:4103861/1‑95 (MQ=1)                                                                           ATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagcc    >  2:2943274/1‑94 (MQ=1)                                                                           ATCCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagcc    >  1:1265166/1‑94 (MQ=1)                                                                             CCACGCCCCCGCGGGGGGAGCGACGCCGCAGATCCAGCGCGTCAAGCAGGTCTTCGACCCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgatagcccg  >  1:1363053/1‑92 (MQ=0)                                                                                                     |||||||||||||||||||||||||||||||||||                                           TTCGATCCACGCCCCCGCGGGGGGAGCGACATGGCGATGCGACGCCGCTGCATGTGACGCTGGACACCGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC.............................................................................  <  NC_014034/1397865‑1397766 .......................................................................................................................................CGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCTGCCC  <  NC_014034/1434778‑1434737 Base quality scores:  ATCG  < 3 ≤  ATCG  < 19 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG