New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	925895 =	188 (0.810)	43 (0.180)	3/196	37.1	0.25	intergenic (+148/+26)	RCAP_rcc00838/glcB	DnaJ domain‑containing protein/malate synthase
	?	NC_014034	1255906 =	64 (0.270)					intergenic (+76/+166)	RCAP_rcc01184/RCAP_rcc01185	CsbD family protein/methyl‑accepting chemotaxis sensory transducer
Rejected: Position hash score below cutoff.

GGATCCAGTCCTCGGGCTATACCGAGCCGGTGCTGCACCAGCGCCGGGCGCAGGTGAAGGCCGCCAAAGCATAAGAAAGGGGGGGCGCTGCCCCCCGTCC...................................................................................................  <  NC_014034/925994‑925895 ...................................................................................................CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTTCCCG  >  NC_014034/1255906‑1256004                                                                                                                                                                                                                                                                                ccgaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAA                            <  2:260470/95‑1 (MQ=0)                                                                        ccgaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAA                            <  2:1188185/95‑1 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          >  1:1493754/5‑101 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          >  2:4353141/5‑101 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          >  2:300309/5‑101 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          <  2:2419576/97‑1 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          >  1:4952/5‑101 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          >  1:4389355/5‑101 (MQ=0)                                                                          gaagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAAT                          <  1:409687/97‑1 (MQ=0)                                                                           aagAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATA                         >  2:3736369/4‑101 (MQ=0)                                                                            agAGGGGGGTCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                        <  2:894607/99‑1 (MQ=0)                                                                            agAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATAT                        >  2:3276209/3‑101 (MQ=0)                                                                            agAGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCCGGGCGCGGCTTTCACCTTGGGCCAAATAT                        >  2:1750264/3‑101 (MQ=0)                                                                             ggGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATC                       <  2:2358331/99‑1 (MQ=2)                                                                              AGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCC                      >  1:2069046/1‑101 (MQ=1)                                                                              AGGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCAGGATATTTCCGCCAAGGGGCAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCC                      >  2:4652942/1‑101 (MQ=0)                                                                               GGGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCC                     <  2:3086253/101‑1 (MQ=11)                                                                                GGGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCG                    <  1:3508824/101‑1 (MQ=14)                                                                                 GGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGTCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGG                   >  2:1542610/1‑101 (MQ=9)                                                                                 GGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGG                   >  2:109748/1‑101 (MQ=14)                                                                                 GGGGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGG                   >  2:4356980/1‑101 (MQ=14)                                                                                   GGGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGG                 <  2:3372997/101‑1 (MQ=14)                                                                                    GGCGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGG                <  1:3627352/101‑1 (MQ=14)                                                                                    GGCGCTCCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGG                <  1:3257655/101‑1 (MQ=9)                                                                                      CGCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGG              >  2:1459732/1‑101 (MQ=17)                                                                                       GCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGG             >  2:4238676/1‑101 (MQ=18)                                                                                       GCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGG             <  2:2106360/101‑1 (MQ=18)                                                                                       GCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGG             >  1:2632666/1‑101 (MQ=18)                                                                                       GCTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCCGGGCGCGGCTTTCACCTTGGGCCAAATAGCCCGGGGGGGG             >  2:1059687/1‑101 (MQ=16)                                                                                        CTGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCGAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGG            <  1:264472/101‑1 (MQ=21)                                                                                         TGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGG           >  1:2452341/1‑101 (MQ=34)                                                                                         TGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGG           >  1:2340404/1‑101 (MQ=34)                                                                                         TGCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGG           >  1:27884/1‑101 (MQ=34)                                                                                          GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGc          >  1:3687060/1‑100 (MQ=21)                                                                                          GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA          >  2:2375928/1‑101 (MQ=34)                                                                                          GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA          >  2:4098838/1‑101 (MQ=34)                                                                                          GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA          >  1:2204268/1‑101 (MQ=34)                                                                                          GCCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGA          >  2:1415529/1‑101 (MQ=34)                                                                                           CCCCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCCCCTTGGGCCAAATATCCCGGGGGGGGGGAA         <  2:3512211/101‑1 (MQ=21)                                                                                           CCCCCCG.CCCCGGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAA         <  2:1944670/101‑1 (MQ=9)                                                                                             CCCCGT.CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACT       >  2:2181087/1‑101 (MQ=34)                                                                                                   CCCCTGCGGGACCCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTTCCCG  <  1:3178006/101‑1 (MQ=11)                                                                                                                                                                                                         GGATCCAGTCCTCGGGCTATACCGAGCCGGTGCTGCACCAGCGCCGGGCGCAGGTGAAGGCCGCCAAAGCATAAGAAAGGGGGGGCGCTGCCCCCCGTCC...................................................................................................  <  NC_014034/925994‑925895 ...................................................................................................CCCTGCGGGACTCCCCCCGGGATATTTCCGCCAAGGGGAAATGAACCCGGGGCGCGGCTTTCACCTTGGGCCAAATATCCCGGGGGGGGGGAACTTCCCG  >  NC_014034/1255906‑1256004 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG