New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1396737	142 (1.050)	44 (0.320)	10/128	18.3	0.38	coding (619/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1397766 =	0 (0.000)					intergenic (+70/+1828)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GCGATCCGTCATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC........................................................................................................................................  >  NC_014034/1396693‑1396737 .................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA  >  NC_014034/1397766‑1397865                                              ||||||||||||||||||||||||||||||||||||                                                                                                     acggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGC                                                                                  <  2:1944034/91‑1 (MQ=0) acggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGC                                                                                  <  1:3128983/91‑1 (MQ=0)  cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                                                                                 <  2:539692/92‑1 (MQ=0)  cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                                                                                 <  2:4185976/92‑1 (MQ=0)  cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                                                                                 >  2:2020213/10‑101 (MQ=0)  cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                                                                                 >  1:886214/10‑101 (MQ=0)  cggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                                                                                 >  1:794005/10‑101 (MQ=0)   ggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGT                                                                                >  1:1397651/9‑101 (MQ=0)   ggcgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGT                                                                                <  2:3829957/93‑1 (MQ=0)     cgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                                                                              <  1:1363053/95‑1 (MQ=0)     cgggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATATGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                                                                              <  2:1775742/95‑1 (MQ=0)       ggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                            <  2:2943274/97‑1 (MQ=1)       ggctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                            <  1:1265166/97‑1 (MQ=1)        gctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                                                                           <  2:3689584/98‑1 (MQ=1)        gctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                                                                           <  1:4103861/98‑1 (MQ=1)         ttATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                          <  2:512343/99‑1 (MQ=1)         ctATCGTCGCTCCCCCCGCTGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCGGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                          >  1:3667340/3‑101 (MQ=0)         ctATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                          <  2:3909026/99‑1 (MQ=1)          tATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGc                                                                         >  1:512400/2‑100 (MQ=1)          tATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                                                                         >  2:2813122/2‑101 (MQ=1)           ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                                                                        >  2:1583620/1‑101 (MQ=1)           ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                                                                        >  2:2043874/1‑101 (MQ=1)           ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                                                                        >  2:3253669/1‑101 (MQ=1)           ATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                                                                        >  1:3139733/1‑101 (MQ=1)            TCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                                                                       >  2:4067721/1‑101 (MQ=1)            TCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                                                                       >  1:1696140/1‑101 (MQ=1)             CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                                                                      <  2:292905/101‑1 (MQ=1)             CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                                                                      >  2:3618542/1‑101 (MQ=1)             CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                                                                      >  2:836257/1‑101 (MQ=1)              GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACG                                                                     >  2:3377662/1‑101 (MQ=1)                CGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGct                                                                   <  2:896233/101‑3 (MQ=1)                 gcgCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTG                                                                  <  1:648318/98‑1 (MQ=0)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTG                                                                  >  1:2438902/1‑101 (MQ=1)                 GCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTG                                                                  <  2:639350/101‑1 (MQ=1)                  CTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGc                                                                 >  2:2861610/1‑100 (MQ=1)                    CCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctg                                                               >  2:2927319/1‑98 (MQ=1)                    CCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctg                                                               <  1:2122348/101‑4 (MQ=1)                     CCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctga                                                              >  2:1438207/1‑97 (MQ=0)                      CCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctgac                                                             >  1:3279536/1‑96 (MQ=0)                       CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctgaca                                                            <  1:3223744/101‑7 (MQ=0)                       CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctgaca                                                            >  1:509635/1‑95 (MQ=0)                       CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctgaca                                                            <  1:3862991/101‑7 (MQ=0)                         CGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctgacacc                                                          <  2:1064008/101‑9 (MQ=0)                         CGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTGctgacacc                                                          <  2:3801100/101‑9 (MQ=0)                                                                        gggctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCG           <  1:3230029/92‑1 (MQ=0)                                                                        gggctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCG           >  1:2031740/10‑101 (MQ=0)                                                                        gggctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCG           >  2:3429242/10‑101 (MQ=0)                                                                        gggcgcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCG           <  1:1293957/92‑1 (MQ=0)                                                                          gctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTG         >  2:2673782/8‑101 (MQ=0)                                                                           ctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGG        <  2:3068910/95‑1 (MQ=0)                                                                           ctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGG        >  1:2390147/7‑101 (MQ=0)                                                                           ctcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGG        <  2:2362293/95‑1 (MQ=0)                                                                            tcgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGA       >  1:1650951/6‑101 (MQ=1)                                                                             cgatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGAT      >  2:1497543/5‑101 (MQ=1)                                                                             cgatCGTCGCTCCCCCCGCGGGGGCGGGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGAT      >  1:4008347/5‑101 (MQ=0)                                                                             ccaGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGAT      <  2:2503213/98‑1 (MQ=1)                                                                              gatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATC     >  2:729192/4‑101 (MQ=1)                                                                              gatCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATC     <  2:1455631/98‑1 (MQ=1)                                                                               atCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCG    >  2:2462182/3‑101 (MQ=1)                                                                               atCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCG    <  1:2924127/99‑1 (MQ=1)                                                                                 CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA  <  2:4008087/101‑1 (MQ=1)                                                                                 CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA  >  1:1652140/1‑101 (MQ=1)                                                                                 CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA  <  2:971388/101‑1 (MQ=1)                                              ||||||||||||||||||||||||||||||||||||                                                                                                     GCGATCCGTCATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC........................................................................................................................................  >  NC_014034/1396693‑1396737 .................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGTGGATCGAA  >  NC_014034/1397766‑1397865 Base quality scores:  ATCG  < 3 ≤  ATCG  < 19 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG