New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1396604	179 (1.160)	48 (0.310)	2/130	30.4	0.24	coding (486/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1434813 =	117 (0.490)					intergenic (‑592/‑366)	RCAP_rcc01334/RCAP_rcc01335	hypothetical protein/Fis family GAF modulated sigma54 specific transcriptional regulator
Rejected: Position hash score below cutoff.

CGCGGGGGCGTGGATCGAAACTGCTTTCGTGGGACTGGCCAGCCGCCCGCGCCAAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC................................................................................  >  NC_014034/1396518‑1396604 ..........................................................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGAAAACCGCG  >  NC_014034/1434813‑1434857                                                                                        |||||||||||||||||||||||||||||||||||                                              CGCGGGGGCGTGGATCGAAACTGCTTTCGTGGGACTGGCCAGCCGCCCGCGCCAAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTC                                                                    >  1:4476132/1‑101 (MQ=1)                                              gtgccgctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGG                       <  2:370638/91‑1 (MQ=1)                                               tgccgctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGA                      >  1:901269/10‑101 (MQ=1)                                                 ccgctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATC                    <  1:362189/94‑1 (MQ=1)                                                 ccgctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATC                    <  1:2866016/94‑1 (MQ=1)                                                  cgctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                   <  1:1588754/95‑1 (MQ=1)                                                   gctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                  >  2:573027/6‑101 (MQ=1)                                                    ctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 <  2:1510206/97‑1 (MQ=1)                                                    ctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 <  1:4626361/97‑1 (MQ=1)                                                    ctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 <  1:4388192/97‑1 (MQ=1)                                                    ctgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                 >  1:4180787/5‑101 (MQ=1)                                                     tgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                <  2:2065067/98‑1 (MQ=1)                                                     tgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                >  2:2043302/4‑101 (MQ=1)                                                     tgcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                >  2:3025890/4‑101 (MQ=1)                                                      gcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAGACCTCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC               <  1:3991238/99‑1 (MQ=0)                                                      gcGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC               <  2:1202685/99‑1 (MQ=1)                                                       cGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACA              <  2:2771772/100‑1 (MQ=1)                                                        GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT             <  1:3312653/101‑1 (MQ=1)                                                        GTCGCGCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT             <  1:4581766/101‑1 (MQ=1)                                                         TCGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATc            <  1:3926598/101‑2 (MQ=1)                                                          CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcg           <  1:2927772/101‑3 (MQ=1)                                                          CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcg           <  2:1231429/101‑3 (MQ=1)                                                          CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcg           <  1:1673210/101‑3 (MQ=1)                                                          CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATcg           <  2:4330274/101‑3 (MQ=1)                                                          CGCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGGGGATCGACACATcg           >  2:2297310/1‑99 (MQ=0)                                                           GCTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGA          >  2:2015063/1‑101 (MQ=1)                                                            CTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAt         >  2:279151/1‑100 (MQ=1)                                                            CTCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAt         >  1:202806/1‑100 (MQ=1)                                                             cCCCCCCGCGGGGGCGTGGATCGAAACCCCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtg        <  1:2765150/100‑3 (MQ=0)                                                             cCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtg        <  1:1947330/100‑3 (MQ=1)                                                             cCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtg        <  2:529006/100‑3 (MQ=1)                                                             TCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGCACACCGATACCGCGTCGCTCCCACCGCGGGGGCGTGGATCGAAACATCGAtg        >  1:3831201/1‑99 (MQ=0)                                                             TCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtg        >  2:1088950/1‑99 (MQ=1)                                                             TCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtg        >  2:3078909/1‑99 (MQ=1)                                                             TCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtg        >  1:410738/1‑99 (MQ=1)                                                             TCCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATAGAtg        >  2:1847543/1‑99 (MQ=1)                                                              CCCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtga       >  1:4088146/1‑98 (MQ=1)                                                               CCCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgat      <  1:989310/101‑5 (MQ=1)                                                                CCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatc     <  2:2188897/101‑6 (MQ=0)                                                                CCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatc     >  1:1722554/1‑96 (MQ=0)                                                                CCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatc     <  1:2628110/101‑6 (MQ=0)                                                                CCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatc     >  1:2610532/1‑96 (MQ=0)                                                                CCCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatc     <  1:2553121/101‑6 (MQ=0)                                                                 CCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatca    <  1:3424577/101‑7 (MQ=0)                                                                 CCCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatca    <  2:4324849/101‑7 (MQ=0)                                                                  CCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatcaa   <  1:558822/101‑8 (MQ=0)                                                                  CCGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatcaa   <  1:3283737/101‑8 (MQ=0)                                                                   CGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatcaaa  <  1:4333768/101‑9 (MQ=0)                                                                   CGCGGGGGCGTGGATCGAAACACCCCGAACCTGTCGGCGGCGAACACCGATACCGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATCGAtgatcaaa  >  1:4095430/1‑93 (MQ=0)                                                                                        |||||||||||||||||||||||||||||||||||                                              CGCGGGGGCGTGGATCGAAACTGCTTTCGTGGGACTGGCCAGCCGCCCGCGCCAAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC................................................................................  >  NC_014034/1396518‑1396604 ..........................................................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGAAAACCGCG  >  NC_014034/1434813‑1434857 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG