New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	158231 =	218 (0.480)	72 (0.160)	4/198	40.0	0.32	intergenic (+34/‑196)	parC/tuf1	DNA topoisomerase IV subunit A/translation elongation factor Tu
	?	NC_014034	1253896 =	94 (0.210)					intergenic (+54/+37)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
Rejected: Position hash score below cutoff.

AGGCCGCCTGCCAGGGCAGCGCGCGTCCCCGAAACGACACGTCCGGGGGGCACCTTGCTTTTCCTTGGCAAAATACGCCGGGGGTGCGGGGGCGGA.G.CCCC.....................................................................................................  <  NC_014034/158331‑158231 ......................................................................................................CG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCCGG  >  NC_014034/1253896‑1253995                                                                                                                                                                                                                                                                                       tacctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCC                              >  1:112592/6‑101 (MQ=32)                                                                          tacctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCC                              >  2:8258512/6‑101 (MQ=32)                                                                          tacctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCC                              >  2:4411969/6‑101 (MQ=32)                                                                           acctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCG                             >  2:2238237/5‑101 (MQ=32)                                                                           acctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCG                             >  1:9036079/5‑101 (MQ=32)                                                                           acctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCG                             >  1:3083312/5‑101 (MQ=32)                                                                             ctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCA                           >  2:7387165/3‑101 (MQ=33)                                                                             ctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCA                           >  1:2269673/3‑101 (MQ=33)                                                                             ctCGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGAGGATCCGCA                           >  2:2437554/3‑101 (MQ=18)                                                                             ctCGGAGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCA                           >  1:6031374/3‑101 (MQ=18)                                                                               CGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGC                         >  2:9083840/1‑101 (MQ=32)                                                                               CGGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGC                         >  1:454361/1‑101 (MQ=32)                                                                                GGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                        >  1:6102354/1‑101 (MQ=32)                                                                                GGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                        >  2:1461199/1‑101 (MQ=32)                                                                                GGGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                        >  1:8775277/1‑101 (MQ=32)                                                                                GGGGGGGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCC                        <  2:5244745/101‑1 (MQ=17)                                                                                 GGGGTGCGGGGGCGGACC.CCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCC                       <  1:1540521/101‑1 (MQ=17)                                                                                 GGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCC                       >  2:3206749/1‑101 (MQ=32)                                                                                 GGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCC                       >  2:3092275/1‑101 (MQ=32)                                                                                 GGGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCC                       >  1:8592566/1‑101 (MQ=32)                                                                                  GGGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCG                      >  1:5883511/1‑101 (MQ=32)                                                                                   GGTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGG                     >  1:779195/1‑101 (MQ=32)                                                                                    GTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGg                    >  2:400752/1‑100 (MQ=17)                                                                                    GTGCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGT                    >  1:3938966/1‑101 (MQ=32)                                                                                      GCGGGGGCGGACC.CCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGC                  <  2:3658425/101‑1 (MQ=11)                                                                                      GCGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGC                  >  1:6582211/1‑101 (MQ=11)                                                                                       CGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCG                 >  1:3149522/1‑101 (MQ=1)                                                                                       CGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCG                 >  1:8556298/1‑101 (MQ=1)                                                                                       CGGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCG                 >  2:2499002/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  1:2750882/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  2:5925086/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  2:8165954/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  2:3660782/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  1:6122192/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  1:8249661/1‑101 (MQ=1)                                                                                        GGGGGCGGA.GCCCCCG.CCGGGACGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGC                >  1:9189978/1‑101 (MQ=1)                                                                                         GGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCT               <  2:7626893/101‑1 (MQ=1)                                                                                         GGGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCT               >  2:5197046/1‑101 (MQ=1)                                                                                          GGGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTG              >  1:2103702/1‑101 (MQ=1)                                                                                           ggggggaccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTG              <  1:5956682/92‑1 (MQ=0)                                                                                           GGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGC             >  2:5675098/1‑101 (MQ=1)                                                                                           GGCGGA.GCCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGC             >  2:1070970/1‑101 (MQ=1)                                                                                            ggcggaccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGC             <  2:8736253/93‑1 (MQ=1)                                                                                             cgcgcccCCCGG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCG            <  2:3327251/94‑1 (MQ=0)                                                                                               ggcccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          <  1:9083315/96‑1 (MQ=1)                                                                                               ggagcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          >  1:2593928/6‑101 (MQ=1)                                                                                               ggagcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          >  2:8340626/6‑101 (MQ=1)                                                                                               ggagcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          >  2:555277/6‑101 (MQ=1)                                                                                               ggagcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          >  2:4784073/6‑101 (MQ=1)                                                                                               ggagcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          >  1:6252050/6‑101 (MQ=1)                                                                                               ggagcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCACTGCGAT          >  1:7077297/6‑101 (MQ=1)                                                                                               ggaccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          <  2:3454441/96‑1 (MQ=1)                                                                                               gccccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGAT          <  2:137421/96‑1 (MQ=1)                                                                                                ggccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATT         <  1:8770299/97‑1 (MQ=1)                                                                                                gcgcCCCAG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATT         <  2:1235628/97‑1 (MQ=1)                                                                                                ccccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATT         <  2:6031137/97‑1 (MQ=1)                                                                                                 ggcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        <  2:4986313/98‑1 (MQ=1)                                                                                                 gccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        <  2:6545792/98‑1 (MQ=1)                                                                                                 cccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        <  2:475652/98‑1 (MQ=1)                                                                                                 cccCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        <  1:2702243/98‑1 (MQ=1)                                                                                                 catgCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        >  2:4331217/5‑101 (MQ=1)                                                                                                 agcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        >  2:7017969/4‑101 (MQ=1)                                                                                                 agcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        >  2:7903739/4‑101 (MQ=1)                                                                                                 agcCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTT        <  2:4816373/98‑1 (MQ=1)                                                                                                  ccCCCGG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTC       <  2:280372/99‑1 (MQ=1)                                                                                                   cCCCCGCCCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTC       <  1:1877496/100‑1 (MQ=11)                                                                                                   cCCCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCT      <  2:6121955/100‑1 (MQ=1)                                                                                                    CCCCG.CCGGGTCGCCGCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTC     <  2:8341546/101‑1 (MQ=1)                                                                                                     CCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCC    >  2:5707086/1‑101 (MQ=1)                                                                                                     CCCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCC    <  1:142184/101‑1 (MQ=1)                                                                                                      CCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCCG   <  2:3856785/101‑1 (MQ=1)                                                                                                      CCG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCCG   <  1:6296051/101‑1 (MQ=1)                                                                                                                                                                                                              AGGCCGCCTGCCAGGGCAGCGCGCGTCCCCGAAACGACACGTCCGGGGGGCACCTTGCTTTTCCTTGGCAAAATACGCCGGGGGTGCGGGGGCGGA.G.CCCC.....................................................................................................  <  NC_014034/158331‑158231 ......................................................................................................CG.CCGGGTCGCCTCGGCGAAAGCCGAGGCGAAATCCTCTCACGGCTTCCAGTTCAGGAAATTCGAGATGATCCGCAGCCCGGTGCGCTGCGATTTCTCCGG  >  NC_014034/1253896‑1253995 Base quality scores:  ATCG  < 3 ≤  ATCG  < 23 ≤  ATCG  < 31 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG