New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397132	137 (0.990)	40 (0.290)	3/130	24.7	0.23	coding (1014/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1397903 =	129 (0.610)					intergenic (+207/+1691)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

CGAGCACATGTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACG.............................................................................  >  NC_014034/1397088‑1397132 ................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCTATGGGAG  >  NC_014034/1397903‑1397944                                              |||||||||||||||||||||||||||||||||||                                           cggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       <  2:539692/91‑1 (MQ=0) cggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       <  2:4185976/91‑1 (MQ=0) cggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       >  2:2020213/11‑101 (MQ=0) cggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       >  1:886214/11‑101 (MQ=0) cggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCG                       >  1:794005/11‑101 (MQ=0)  ggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGT                      >  1:1397651/10‑101 (MQ=0)  ggcgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGT                      <  2:3829957/92‑1 (MQ=0)    cgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                    <  1:1363053/94‑1 (MQ=0)    cgggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATATGCGGCGTCGCTCCCCCCGCGGGGGCGTGG                    <  2:1775742/94‑1 (MQ=0)      ggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                  <  2:2943274/96‑1 (MQ=1)      ggctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGAT                  <  1:1265166/96‑1 (MQ=1)       gctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                 <  1:4103861/97‑1 (MQ=1)       gctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATC                 <  2:3689584/97‑1 (MQ=1)        ttaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                <  2:512343/98‑1 (MQ=1)        ctaTCGTCGCTCCCCCCGCTGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCGGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                >  1:3667340/4‑101 (MQ=0)        ctaTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCG                <  2:3909026/98‑1 (MQ=1)         taTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGc               >  1:512400/3‑100 (MQ=1)         taTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGA               >  2:2813122/3‑101 (MQ=1)          aTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  2:3253669/2‑101 (MQ=1)          aTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  2:1583620/2‑101 (MQ=1)          aTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  1:3139733/2‑101 (MQ=1)          aTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAA              >  2:2043874/2‑101 (MQ=1)           TCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             >  2:4067721/1‑101 (MQ=1)           TCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA             >  1:1696140/1‑101 (MQ=1)            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            >  2:836257/1‑101 (MQ=1)            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            <  2:292905/101‑1 (MQ=1)            CGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC            >  2:3618542/1‑101 (MQ=1)             GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACg           >  2:3377662/1‑100 (MQ=1)               CGCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCT         <  2:896233/101‑1 (MQ=1)                gcgCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTg        <  1:648318/98‑2 (MQ=0)                GCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTg        >  1:2438902/1‑100 (MQ=1)                GCTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTg        <  2:639350/101‑2 (MQ=1)                 CTCCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgc       >  2:2861610/1‑99 (MQ=1)                   CCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctg     >  2:2927319/1‑97 (MQ=1)                   CCCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctg     <  1:2122348/101‑5 (MQ=1)                    CCCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctga    >  2:1438207/1‑96 (MQ=0)                     CCCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgac   >  1:3279536/1‑95 (MQ=0)                      CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgaca  <  1:3223744/101‑8 (MQ=0)                      CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgaca  >  1:509635/1‑94 (MQ=0)                      CCCGCGGGGGCGTGGATCGAAACGGGTCGAAGACCTGCTTGACGCGCTGGATCTGCGGCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGCTgctgaca  <  1:3862991/101‑8 (MQ=0)                                              |||||||||||||||||||||||||||||||||||                                           CGAGCACATGTCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACG.............................................................................  >  NC_014034/1397088‑1397132 ................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCTATGGGAG  >  NC_014034/1397903‑1397944 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG