New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397600	157 (0.990)	45 (0.280)	15/134	19.5	0.22	coding (1482/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1397836 =	154 (0.650)					intergenic (+140/+1758)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

CGCGCTGACGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT................................................................................  >  NC_014034/1397558‑1397600 ............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGGCACCTCAGCCC  >  NC_014034/1397836‑1397882                                            |||||||||||||||||||||||||||||||||                                                cgcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        >  2:4593709/9‑101 (MQ=0) cgcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        <  2:2701087/93‑1 (MQ=0) cgcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        >  1:3768479/9‑101 (MQ=0) cgcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGA                        <  2:1040619/93‑1 (MQ=0)  gcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGgt                       >  2:4362149/8‑99 (MQ=0)  gcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  2:24096/94‑1 (MQ=1)  gcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  2:1370454/94‑1 (MQ=1)  gcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  2:1135072/94‑1 (MQ=1)  gcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  2:685449/94‑1 (MQ=1)  gcggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                       <  2:826403/94‑1 (MQ=1)   cggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                      <  1:2026338/95‑1 (MQ=1)    ggttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGGTCG                     >  2:439236/6‑101 (MQ=0)     gttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                    >  2:1265337/5‑101 (MQ=1)     gttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA                    <  1:3430769/97‑1 (MQ=1)      ttgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                   >  2:2149569/4‑101 (MQ=1)       tgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGGGTGGATCGAAA                  >  2:1783993/3‑101 (MQ=1)       tgCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                  <  2:1034116/99‑1 (MQ=1)        gCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                 >  2:171963/2‑101 (MQ=1)         CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACC                <  2:2549532/101‑1 (MQ=1)         CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACC                <  2:2302311/101‑1 (MQ=1)         CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGGGGATCGAAACC                >  2:472197/1‑101 (MQ=1)          GTCGCTCCCCTCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCC               >  1:149586/1‑101 (MQ=1)          GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCC               >  2:4608724/1‑101 (MQ=1)          GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGGGGATCccaacac               >  2:3204231/1‑94 (MQ=0)          GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGGTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCC               >  2:2471955/1‑101 (MQ=1)            CGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCGCCGCGGGGGCGTGGATCGAAACCCGc             >  1:3919459/1‑100 (MQ=1)            CGCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTACAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGc             >  2:1081152/1‑100 (MQ=1)             GCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGcc            <  1:2911496/101‑3 (MQ=1)             GCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGcc            >  2:2959887/1‑99 (MQ=1)             GCTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGcc            <  2:346236/101‑3 (MQ=1)              CTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGccc           >  2:363162/1‑98 (MQ=1)              CTCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAACCGCCA           >  2:1186824/1‑101 (MQ=0)               TCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCAC          >  2:1017286/1‑101 (MQ=1)               TCCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGGGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGGGTGGATCGAAACCCGCCAC          >  2:3942793/1‑101 (MQ=0)                CCCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGGGGGGGCGTGGATCGAAACCCGCCACg         >  1:3922382/1‑100 (MQ=0)                 CCCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACgt        >  2:938021/1‑99 (MQ=1)                  CCCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTC       >  1:421990/1‑101 (MQ=0)                   CCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCt      >  2:355731/1‑100 (MQ=0)                   CCCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCt      <  2:51778/101‑2 (MQ=0)                    CCGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAACCGCCACGTCtt     >  2:3162265/1‑99 (MQ=0)                     CGCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACCTCttg    >  1:2515544/1‑98 (MQ=0)                      GCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCttgg   <  2:2212052/101‑5 (MQ=0)                      GCGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCttgg   >  1:4053677/1‑97 (MQ=0)                       CGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCttgga  <  2:4500142/101‑6 (MQ=0)                       CGGGGGCGTGGATCGAAACATGGCTATGGCGGCAGTGTCAGGTTTTCCAGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGCCACGTCttgga  >  1:3716553/1‑96 (MQ=0)                                            |||||||||||||||||||||||||||||||||                                                CGCGCTGACGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACAT................................................................................  >  NC_014034/1397558‑1397600 ............................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGGCACCTCAGCCC  >  NC_014034/1397836‑1397882 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 32 ≤  ATCG  < 38 ≤  ATCG