New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1253895 =	37 (0.160)	37 (0.160)	10/196	30.5	0.42	intergenic (+53/+38)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 3276387	66 (0.280)					intergenic (‑139/+110)	RCAP_rcc03082/RCAP_rcc03083	lipoprotein/membrane bound YbgT‑like protein
Rejected: Position hash score below cutoff.

GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG....................................................................................................  <  NC_014034/1253993‑1253895 .................................................................................................CGGGGGCTCCGCCCCCGGACCCCCGGCGTATTTGGGCCAAGAAGAAACGGGGGCCGGTTGCCCGGGGGGCCTTGCGCCGCATTGCCCCTTGCCCCCGTCGTG  <  NC_014034/3276387‑3276288                                                                                                                                                                                                         GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGG                                                                                                    >  1:693072/1‑101 (MQ=1) GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGG                                                                                                    >  1:3177504/1‑101 (MQ=1) GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGG                                                                                                    >  1:2262720/1‑101 (MQ=1)  GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGG                                                                                                   <  1:3548841/101‑1 (MQ=1)   AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGGGG                                                                                                  >  1:4069719/1‑101 (MQ=1)   AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGG                                                                                                  <  2:4127384/101‑1 (MQ=1)   AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGG                                                                                                  <  2:4169726/101‑1 (MQ=1)    GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGC                                                                                                 <  1:778416/101‑1 (MQ=1)     AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCT                                                                                                <  2:1102081/101‑1 (MQ=1)     AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCT                                                                                                <  1:523554/101‑1 (MQ=1)      AATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCCGGGGCgc                                                                                               >  1:2919127/1‑99 (MQ=1)       ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCC                                                                                              <  2:3873057/101‑1 (MQ=1)       ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCC                                                                                              <  2:2257756/101‑1 (MQ=1)          GCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCCGGGGgggcgcc                                                                                           >  2:2234407/1‑94 (MQ=0)           CAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGgggcggcc                                                                                          >  2:183050/1‑93 (MQ=0)            AGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCC                                                                                         <  2:3606556/101‑1 (MQ=1)            AGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCGCCCCCCC                                                                                         >  2:4091353/1‑101 (MQ=11)             GCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCC                                                                                        <  1:1073280/101‑1 (MQ=1)              CGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGTCGAGTCTACCCGGCGGGGGCTCCGCCCCCG                                                                                       <  2:1504176/101‑1 (MQ=0)                  CCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACC                                                                                   <  1:4245193/101‑1 (MQ=32)                     GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCC                                                                                <  2:2977579/101‑1 (MQ=32)                     GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCC                                                                                <  1:675259/101‑1 (MQ=32)                     GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCATCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCC                                                                                <  1:125209/101‑1 (MQ=17)                      GCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCG                                                                               <  1:4502706/101‑1 (MQ=32)                      GCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCG                                                                               <  2:2014047/101‑1 (MQ=32)                      GCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCG                                                                               <  1:2731371/101‑1 (MQ=32)                        TGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGag                                                                             <  1:586145/101‑3 (MQ=32)                        TGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGag                                                                             <  1:2045009/101‑3 (MQ=33)                          CGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGTGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggt                                                                           <  2:320842/101‑5 (MQ=17)                           GGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggta                                                                          <  1:564939/101‑6 (MQ=32)                           GGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggta                                                                          <  1:2855879/101‑6 (MQ=32)                           GGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGaggta                                                                          <  1:2508034/101‑6 (MQ=32)                             ATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATT                                                                        <  2:4201248/101‑1 (MQ=32)                              TCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTT                                                                       <  2:1072620/101‑1 (MQ=32)                               CATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTa                                                                      <  2:3533731/101‑2 (MQ=32)                                ATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTag                                                                     <  1:3266331/101‑3 (MQ=32)                                ATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCGCACCCCCGAGGTATTTag                                                                     <  2:693010/101‑3 (MQ=32)                                                                                                                                                                                                         GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG....................................................................................................  <  NC_014034/1253993‑1253895 .................................................................................................CGGGGGCTCCGCCCCCGGACCCCCGGCGTATTTGGGCCAAGAAGAAACGGGGGCCGGTTGCCCGGGGGGCCTTGCGCCGCATTGCCCCTTGCCCCCGTCGTG  <  NC_014034/3276387‑3276288 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG