New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1224266	201 (1.000)	35 (0.170)	8/178	28.1	0.22	intergenic (‑138/+31)	hisF/hisA	imidazole glycerol phosphate synthase subunit HisF/1‑(5‑phosphoribosyl)‑5‑[(5‑ phosphoribosylamino)methylideneamino] imidazole‑4‑carboxamide isomerase
	?	NC_014034	1640006 =	45 (0.200)					intergenic (+86/‑59)	mccB/mccA	methylcrotonoyl‑CoA carboxylase subunit beta/methylcrotonoyl‑CoA carboxylase subunit alpha
Rejected: Position hash score below cutoff.

AAGCCTCTTCATCTTGCCACAAATATCCCGGGGGG...............................................................................................................  >  NC_014034/1224232‑1224266 ..............................................GCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  NC_014034/1640006‑1640105                                    |||||||||||                                                                                                     catccctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGAC                                               >  1:3224075/8‑101 (MQ=32)  atccctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACC                                              >  1:996336/7‑101 (MQ=31)  atccctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACC                                              >  1:4165218/7‑101 (MQ=31)      ctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGA                                          >  1:4185411/3‑101 (MQ=1)       tTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGAT                                         >  1:1348068/2‑101 (MQ=1)       tTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGAT                                         >  2:2949176/2‑101 (MQ=1)        TTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATG                                        >  2:1132183/1‑101 (MQ=1)           ATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTT                                     >  2:650917/1‑101 (MQ=1)           ATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTT                                     >  2:3199038/1‑101 (MQ=1)           ATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTT                                     >  1:2541996/1‑101 (MQ=1)            TCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTC                                    >  2:3063283/1‑101 (MQ=1)            TCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTC                                    >  2:1831399/1‑101 (MQ=1)            TCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTC                                    >  1:3410791/1‑101 (MQ=1)             CTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCA                                   >  2:473330/1‑101 (MQ=1)             CTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCA                                   >  2:1631071/1‑101 (MQ=1)              TTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGGGACCGCGATGTTTCAA                                  >  2:884845/1‑101 (MQ=1)              TTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAA                                  >  2:309034/1‑101 (MQ=1)               TGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAA                                 >  1:4352643/1‑101 (MQ=1)               TGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCAGCCGTTGACGAAGGAGACCGCGATGTTTCAAA                                 >  1:1886487/1‑101 (MQ=1)                GCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAA                                >  1:1805490/1‑101 (MQ=1)                 ccccagATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAa                               >  1:865870/7‑100 (MQ=1)                 cccCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAG                               >  2:2437084/4‑101 (MQ=1)                  ccCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGA                              >  1:4190192/3‑101 (MQ=1)                    CAAATATCCCGGGGGGCCCGGGGGGGAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATC                            >  2:3054581/1‑101 (MQ=1)                    CAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATC                            >  2:4001707/1‑101 (MQ=1)                       ATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTG                         >  1:3411153/1‑101 (MQ=1)                         ATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGAT                       >  1:4387768/1‑101 (MQ=1)                          TCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATC                      >  2:1498276/1‑101 (MQ=1)                            CCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGC                    >  1:2873755/1‑101 (MQ=1)                            CCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGC                    >  2:1621041/1‑101 (MQ=1)                             CGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCC                   >  1:479916/1‑101 (MQ=1)                             CGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCC                   >  2:496413/1‑101 (MQ=1)                              GGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCA                  >  1:1648436/1‑101 (MQ=1)                              GGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCA                  >  1:1215935/1‑101 (MQ=1)                                   GCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGG             >  1:729367/1‑101 (MQ=1)                                     CCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGC           >  2:2557792/1‑101 (MQ=1)                                     CCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGC           >  2:2692596/1‑101 (MQ=1)                                      CGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCC          >  1:2777056/1‑101 (MQ=1)                                       GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCG         >  2:3458200/1‑101 (MQ=1)                                       GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCG         >  2:2764940/1‑101 (MQ=1)                                       GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCG         >  1:2067289/1‑101 (MQ=1)                                       GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCG         >  2:1149489/1‑101 (MQ=1)                                        GGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGA        >  2:3170201/1‑101 (MQ=1)                                        GGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGA        >  2:3942957/1‑101 (MQ=1)                                         GGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAG       >  2:2964591/1‑101 (MQ=1)                                         GGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAG       >  1:1106617/1‑101 (MQ=1)                                           GGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGAT     >  2:1286528/1‑101 (MQ=1)                                           GGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGAT     >  1:3182644/1‑101 (MQ=1)                                            GCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATC    >  1:1204484/1‑101 (MQ=1)                                              AGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  1:2505123/1‑101 (MQ=1)                                              AGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  2:1402525/1‑101 (MQ=1)                                              AGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  1:428419/1‑101 (MQ=1)                                              AGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  1:4175358/1‑101 (MQ=1)                                    |||||||||||                                                                                                     AAGCCTCTTCATCTTGCCACAAATATCCCGGGGGG...............................................................................................................  >  NC_014034/1224232‑1224266 ..............................................GCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATCGC  >  NC_014034/1640006‑1640105 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG