New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397665	152 (1.000)	29 (0.190)	8/134	22.9	0.16	coding (1547/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1397836 =	143 (0.630)					intergenic (+140/+1758)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

ATCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACT.............................................................................  >  NC_014034/1397629‑1397665 ......................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGGCACCTCAG  >  NC_014034/1397836‑1397879                                      |||||||||||||||||||||||||||||||||                                             acaGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               >  2:2415830/4‑101 (MQ=1) acaGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               <  2:281843/98‑1 (MQ=1) acaGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               >  1:682259/4‑101 (MQ=1) acaGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA               >  1:4281211/4‑101 (MQ=1)  caGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC              >  2:4283484/3‑101 (MQ=1)  caGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGACGCTCCCCCCGCGGGGGCGTGGATCGAAAC              >  1:320932/3‑101 (MQ=1)   aGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt             <  2:3749483/100‑2 (MQ=1)   aGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt             <  2:558154/100‑2 (MQ=1)    GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACtc            >  1:2086180/1‑99 (MQ=1)    GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACtc            <  1:1900234/101‑3 (MQ=1)     GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCG           >  1:2383835/1‑101 (MQ=1)     GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCG           <  2:1582320/101‑1 (MQ=1)     GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCG           <  2:2968462/101‑1 (MQ=1)      TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGG          >  2:3264107/1‑101 (MQ=1)      TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGG          <  2:3194924/101‑1 (MQ=1)      TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGG          >  2:2416091/1‑101 (MQ=1)      TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTAAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGG          <  1:1906508/101‑1 (MQ=0)        cCTCCCCCCGCGGGGGCTTGGATCGAAACTTGTCTGACGCCCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCA        <  1:3989326/100‑1 (MQ=0)        GCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTGAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCA        >  1:25827/1‑101 (MQ=0)        GCTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCA        <  1:3371662/101‑1 (MQ=1)         CTCCCCCCGCGGGGGCGTGGATCGGAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAa       >  2:143840/1‑100 (MQ=0)         CTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAa       >  2:2610744/1‑100 (MQ=1)         CTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAa       <  2:1595297/101‑2 (MQ=1)         CTCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAa       >  1:1713885/1‑100 (MQ=1)          TCCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAag      >  1:4448669/1‑99 (MQ=1)           CCCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAagg     >  2:2021137/1‑98 (MQ=1)            CCCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAATCGGCAagga    >  2:142936/1‑97 (MQ=0)             CCCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAaggac   <  1:887402/101‑6 (MQ=1)              CCCGCGGGGGCGTGGATCGAAACTTGTCTGACGCGCTCATCAGCACGTCAAGATTCAGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCAaggaca  >  2:3600663/1‑95 (MQ=1)                                      |||||||||||||||||||||||||||||||||                                             ATCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACT.............................................................................  >  NC_014034/1397629‑1397665 ......................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACCCGGCACCTCAG  >  NC_014034/1397836‑1397879 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG