New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 408471	208 (0.800)	48 (0.190)	11/178	32.5	0.26	intergenic (+89/+59)	glnA1/dapA	glutamine synthetase/dihydrodipicolinate synthase
	?	NC_014034	1640006 =	60 (0.210)					intergenic (+86/‑59)	mccB/mccA	methylcrotonoyl‑CoA carboxylase subunit beta/methylcrotonoyl‑CoA carboxylase subunit alpha
Rejected: Position hash score below cutoff.

GATGTCCTTCATCTTGCCGCAAATATCCCGGGGGG.............................................................................................................  >  NC_014034/408437‑408471 ..............................................GCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATC  >  NC_014034/1640006‑1640103                                    |||||||||||                                                                                                   catccctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGAC                                             >  1:622937/8‑101 (MQ=32) catccctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGAC                                             >  1:1944186/8‑101 (MQ=32) catccctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGAC                                             >  2:630612/8‑101 (MQ=32)     cctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGGGACCGCG                                         >  2:4136842/4‑101 (MQ=1)     cctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCG                                         >  2:852854/4‑101 (MQ=1)     cctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCG                                         >  1:2828137/4‑101 (MQ=1)      ctTTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGA                                        >  2:1332332/3‑101 (MQ=1)        TTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATG                                      >  2:1762605/1‑101 (MQ=1)        TTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATG                                      >  2:372539/1‑101 (MQ=1)        TTCATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATG                                      >  2:4813007/1‑101 (MQ=1)          CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGgt                                    >  1:2577321/1‑99 (MQ=1)          CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTT                                    >  1:3555158/1‑101 (MQ=1)          CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTT                                    >  1:2800620/1‑101 (MQ=1)          CATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTT                                    >  1:2655277/1‑101 (MQ=1)           ATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTT                                   >  2:3862500/1‑101 (MQ=1)           ATCTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTT                                   >  2:902808/1‑101 (MQ=1)             CTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCA                                 >  2:2435837/1‑101 (MQ=1)             CTTGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCA                                 >  1:1453035/1‑101 (MQ=1)               TGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCTGGCCGTTGACGAAGGAGACCGCGATGTTTCAAA                               >  1:5005550/1‑101 (MQ=1)               TGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAA                               >  1:3550492/1‑101 (MQ=1)               TGCCCCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAA                               >  1:5701210/1‑101 (MQ=1)                 cccCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAG                             >  2:5668158/4‑101 (MQ=1)                  ccCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGA                            >  2:862239/3‑101 (MQ=1)                  ccCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGA                            >  2:214927/3‑101 (MQ=1)                  ccCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGA                            >  1:4020112/3‑101 (MQ=1)                   cCAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGAT                           >  1:5338137/2‑101 (MQ=1)                    CAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATC                          >  2:4042248/1‑101 (MQ=1)                    CAAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATC                          >  1:3837554/1‑101 (MQ=1)                     AAATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCC                         >  1:3357683/1‑101 (MQ=1)                      AATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCT                        >  1:2638362/1‑101 (MQ=1)                      AATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCT                        >  2:1656747/1‑101 (MQ=1)                      AATATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCT                        >  2:2324395/1‑101 (MQ=1)                         ATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGAT                     >  1:5129836/1‑101 (MQ=1)                         ATCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGAT                     >  2:4378264/1‑101 (MQ=1)                          TCCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATC                    >  2:4372618/1‑101 (MQ=1)                           CCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCG                   >  1:5287381/1‑101 (MQ=1)                           CCCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCG                   >  2:1735904/1‑101 (MQ=1)                            CCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGC                  >  2:3645167/1‑101 (MQ=1)                            CCGGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGC                  >  1:3363425/1‑101 (MQ=1)                              GGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCA                >  1:862647/1‑101 (MQ=1)                              GGGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCA                >  2:2568449/1‑101 (MQ=1)                               GGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAA               >  2:3891232/1‑101 (MQ=1)                               GGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAA               >  2:5063153/1‑101 (MQ=1)                               GGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAA               >  2:2278260/1‑101 (MQ=1)                               GGGGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCACCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAA               >  2:2229651/1‑101 (MQ=1)                                 GGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACA             >  2:1883853/1‑101 (MQ=1)                                 GGGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACA             >  1:5709080/1‑101 (MQ=1)                                  GGCCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAG            >  2:5408863/1‑101 (MQ=1)                                    CCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGG          >  2:4166059/1‑101 (MQ=1)                                    CCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGG          >  2:3741727/1‑101 (MQ=1)                                    CCCGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGG          >  2:3734245/1‑101 (MQ=1)                                      CGGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCC        >  2:2076472/1‑101 (MQ=1)                                       GGGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGCCGAAGGGGACCGCGATGGTTCAAAAGATCCTGATCGCCAACAGGGCCG       >  1:4463989/1‑101 (MQ=0)                                        GGGGGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGA      >  2:2178613/1‑101 (MQ=1)                                           GGCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGAT   >  1:3642195/1‑101 (MQ=1)                                            GCAGCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATC  >  2:4617250/1‑101 (MQ=1)                                    |||||||||||                                                                                                   GATGTCCTTCATCTTGCCGCAAATATCCCGGGGGG.............................................................................................................  >  NC_014034/408437‑408471 ..............................................GCGCCCCCCGCCACTTCCGCCACGGGGCAGCGCCCCGGCCGTTGACGAAGGAGACCGCGATGTTTCAAAAGATCCTGATCGCCAACAGGGCCGAGATC  >  NC_014034/1640006‑1640103 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 37 ≤  ATCG