New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	504736 =	167 (0.730)	36 (0.160)	6/192	33.5	0.25	intergenic (+9/+101)	trpS/RCAP_rcc00470	tryptophanyl‑tRNA synthetase/MATE efflux family protein
	?	NC_014034	1253899 =	44 (0.190)					intergenic (+57/+34)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
Rejected: Position hash score below cutoff.

TGAGCTGCGCTCATTCACCCCCCGGGATATTTGCGGCAAGATAAAGGGGCTCGGCTTTCATCTTGCCACAAATATCCCGGGGGTGCGGGGGCAGAGCCCCCGCC....................................................................................................  <  NC_014034/504839‑504736 ....................................................................................................CGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCCGGGTG  >  NC_014034/1253899‑1253998                                                                                                                                                                                                                                                                                 ctAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGAT                                      >  1:3266331/3‑101 (MQ=32)                                                                    ctAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGAT                                      >  2:693010/3‑101 (MQ=32)                                                                     tAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATG                                     >  2:3533731/2‑101 (MQ=32)                                                                      AAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGA                                    >  2:1072620/1‑101 (MQ=32)                                                                       AATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGAT                                   >  2:4201248/1‑101 (MQ=32)                                                                         tacctCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCC                                 >  1:2508034/6‑101 (MQ=32)                                                                         tacctCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCC                                 >  1:2855879/6‑101 (MQ=32)                                                                         tacctCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCC                                 >  1:564939/6‑101 (MQ=32)                                                                          acctCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCACTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCG                                >  2:320842/5‑101 (MQ=17)                                                                            ctCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCA                              >  1:586145/3‑101 (MQ=32)                                                                            ctCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCA                              >  1:2045009/3‑101 (MQ=33)                                                                              CGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGC                            >  1:2731371/1‑101 (MQ=32)                                                                              CGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGC                            >  2:2014047/1‑101 (MQ=32)                                                                              CGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGC                            >  1:4502706/1‑101 (MQ=32)                                                                               GGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGATGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                           >  1:125209/1‑101 (MQ=17)                                                                               GGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                           >  2:2977579/1‑101 (MQ=32)                                                                               GGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                           >  1:675259/1‑101 (MQ=32)                                                                                  GGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGG                        >  1:4245193/1‑101 (MQ=32)                                                                                       GGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                   >  1:1073280/1‑101 (MQ=1)                                                                                        gggggggcGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCT                  <  2:4091353/93‑1 (MQ=11)                                                                                        GGGGCGGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCT                  >  2:3606556/1‑101 (MQ=1)                                                                                         ggccgcccCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTG                 <  2:183050/93‑1 (MQ=0)                                                                                          ggcgcccCCCCGGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGC                <  2:2234407/94‑1 (MQ=0)                                                                                             gGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT             >  2:2257756/2‑101 (MQ=1)                                                                                             gGAGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT             >  2:3873057/2‑101 (MQ=1)                                                                                              gcGCCCCGGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATT            <  1:2919127/99‑1 (MQ=1)                                                                                               AGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT           >  1:523554/1‑101 (MQ=1)                                                                                               AGCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT           >  2:1102081/1‑101 (MQ=1)                                                                                                GCCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTC          >  1:778416/1‑101 (MQ=1)                                                                                                 CCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCT         >  2:4127384/1‑101 (MQ=1)                                                                                                 CCCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCT         >  2:4169726/1‑101 (MQ=1)                                                                                                 CCCCCCCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCT         <  1:4069719/101‑1 (MQ=1)                                                                                                  CCCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTC        >  1:3548841/1‑101 (MQ=1)                                                                                                   CCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCC       <  1:2262720/101‑1 (MQ=1)                                                                                                   CCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCC       <  1:3177504/101‑1 (MQ=1)                                                                                                   CCCGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCC       <  1:693072/101‑1 (MQ=1)                                                                                                                                                                                                              TGAGCTGCGCTCATTCACCCCCCGGGATATTTGCGGCAAGATAAAGGGGCTCGGCTTTCATCTTGCCACAAATATCCCGGGGGTGCGGGGGCAGAGCCCCCGCC....................................................................................................  <  NC_014034/504839‑504736 ....................................................................................................CGCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCCGGGTG  >  NC_014034/1253899‑1253998 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG