New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 925883	184 (0.980)	46 (0.240)	22/178	16.9	0.29	intergenic (+136/+38)	RCAP_rcc00838/glcB	DnaJ domain‑containing protein/malate synthase
	?	NC_014034	1640006 =	39 (0.180)					intergenic (+86/‑59)	mccB/mccA	methylcrotonoyl‑CoA carboxylase subunit beta/methylcrotonoyl‑CoA carboxylase subunit alpha
Rejected: Position hash score below cutoff.

GGCCGCTTTGCCCTTTCATCTTGCCCCAAATATCCCGGGGGG...............................................................................................................  >  NC_014034/925842‑925883 .....................................................GCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  NC_014034/1640006‑1640105                                           |||||||||||                                                                                                     tgaaacccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGA                                                      >  1:1327950/11‑101 (MQ=39) tgaaacccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGA                                                      >  1:229503/11‑101 (MQ=39)  gaaacccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAA                                                     >  2:105336/10‑101 (MQ=39)  gaaacccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAA                                                     >  1:2494886/10‑101 (MQ=39)    aacccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGG                                                   >  1:96620/8‑101 (MQ=37)     acccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGA                                                  >  2:3396684/7‑101 (MQ=35)      cccatCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAG                                                 >  1:4188376/6‑101 (MQ=34)        catCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGAC                                               >  2:1430903/4‑101 (MQ=32)         atCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACC                                              >  1:1408632/3‑101 (MQ=31)          tCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCG                                             >  1:1624093/2‑101 (MQ=11)          tCCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCG                                             >  1:2684234/2‑101 (MQ=11)           CCCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGC                                            >  1:478407/1‑101 (MQ=1)            CCTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCG                                           >  2:4164487/1‑101 (MQ=1)             CTTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGA                                          >  1:2484647/1‑101 (MQ=1)              TTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGAT                                         >  1:2824194/1‑101 (MQ=1)               TTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATG                                        >  2:3563178/1‑101 (MQ=1)               TTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATG                                        >  1:1091080/1‑101 (MQ=1)                TCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGT                                       >  1:1838639/1‑101 (MQ=1)                TCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGT                                       >  1:15707/1‑101 (MQ=1)                TCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGT                                       >  1:2241139/1‑101 (MQ=1)                 CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGgt                                      >  1:980072/1‑99 (MQ=1)                 CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTT                                      >  2:1814031/1‑101 (MQ=1)                 CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTT                                      >  1:204490/1‑101 (MQ=1)                 CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTT                                      >  2:1963307/1‑101 (MQ=1)                  ATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTT                                     >  1:3487541/1‑101 (MQ=1)                   TCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTC                                    >  2:3738016/1‑101 (MQ=1)                   TCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTC                                    >  2:4220085/1‑101 (MQ=1)                    CTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCTCCGGCCGTTGACGAAGGAGACCGCGATGTTTCA                                   >  1:3643864/1‑101 (MQ=1)                    CTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGAGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCA                                   >  2:1398167/1‑101 (MQ=1)                      TGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGCAGACCGCGATGTTTCAAA                                 >  1:4015837/1‑101 (MQ=1)                        CCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAG                               >  2:1861649/1‑101 (MQ=1)                            AAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCC                           >  1:939176/1‑101 (MQ=1)                            AAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCC                           >  2:3708778/1‑101 (MQ=1)                             AATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCT                          >  1:2303192/1‑101 (MQ=1)                              ATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTG                         >  1:2178667/1‑101 (MQ=1)                              ATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTG                         >  2:47642/1‑101 (MQ=1)                               TATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGTCGAAGGAGACCGCGATGTTTCAAAAGATCCTGA                        >  1:3677459/1‑101 (MQ=1)                                ATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGAT                       >  1:4056427/1‑101 (MQ=1)                                ATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGAT                       >  2:2341522/1‑101 (MQ=1)                                  nCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCNGATCn                     >  1:963020/2‑100 (MQ=1)                                   CCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCNGTTGACGAAGGNGACCGCGATGTNTCAAAAGATCCTGATCGC                    >  1:247721/1‑101 (MQ=1)                                     GGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGAACGCGATGTTTCAAAAGATCCTGATCGCCA                  >  2:527490/1‑101 (MQ=1)                                      GGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAA                 >  2:3486806/1‑101 (MQ=1)                                       GGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAAC                >  2:853025/1‑101 (MQ=1)                                        GGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACA               >  2:2985159/1‑101 (MQ=1)                                        GGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACA               >  2:2196054/1‑101 (MQ=1)                                            CCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGC           >  1:3313296/1‑101 (MQ=1)                                             CGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCC          >  2:1975314/1‑101 (MQ=1)                                              GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGGCG         >  2:3565146/1‑101 (MQ=1)                                              GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCG         >  2:1130248/1‑101 (MQ=1)                                              GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCG         >  2:4049892/1‑101 (MQ=1)                                                 GGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGA      >  2:2053851/1‑101 (MQ=1)                                                    CAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCG   >  2:306223/1‑101 (MQ=1)                                                     AGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  2:4070547/1‑101 (MQ=1)                                                     AGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  1:2273980/1‑101 (MQ=1)                                           |||||||||||                                                                                                     GGCCGCTTTGCCCTTTCATCTTGCCCCAAATATCCCGGGGGG...............................................................................................................  >  NC_014034/925842‑925883 .....................................................GCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  NC_014034/1640006‑1640105 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG