New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 392462	33 (0.140)	27 (0.110)	2/198	38.6	0.44	intergenic (‑110/+33)	RCAP_rcc00363/trmD	hypothetical protein/tRNA (guanine‑N1)‑methyltransferase
	?	NC_014034	= 2330174	35 (0.150)					intergenic (+149/+163)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

TCGGCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......CGGCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAC  >  NC_014034/2330074‑2330243                                                                                                      |                                                                              tCGGCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGgc                                                                               <  2:3585635/101‑1 (MQ=255)  cGGCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGgc.g                                                                             >  1:256154/1‑101 (MQ=255)    gCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGgc.ggg                                                                           >  2:1078762/1‑99 (MQ=255)    gCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGgc.ggg                                                                           <  2:456194/101‑3 (MQ=255)    gCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGgc.ggg                                                                           >  1:651933/1‑99 (MQ=255)      ttGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Gggg                                                                  <  1:3406152/101‑2 (MQ=255)       tGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggc                                                                 <  2:3152636/101‑3 (MQ=255)         gCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggctc                                                               <  1:452511/101‑5 (MQ=255)          ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggggcc                                                              >  1:1025843/1‑96 (MQ=255)          ccTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggctcc                                                              <  1:2135529/101‑6 (MQ=255)            tCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggctccgc                                                            <  1:3030011/101‑8 (MQ=255)             ccGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggggcgccc                                                           >  2:3253346/1‑93 (MQ=255)             ccGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggctccgcc                                                           >  2:2486798/1‑93 (MQ=255)             ccGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......Ggggctccgcc                                                           <  2:3503630/101‑9 (MQ=255)               gCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGGGGCCCCGGGG.G.......GGGGCCCGCCcc                                                          >  2:3371566/1‑101 (MQ=255)                     ggcggcAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGCGG.......GGGCTCCGCCcccccacc                                                    >  1:3498758/1‑98 (MQ=37)                                      gagCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGcc                                         <  2:1652387/101‑1 (MQ=18)                                       agCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCa                                        <  2:3737205/101‑1 (MQ=18)                                          cccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGa                                     <  2:3628410/100‑1 (MQ=18)                                             gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCCAGaaaa                                  >  2:4091761/1‑101 (MQ=18)                                             gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                  <  1:3297153/101‑1 (MQ=18)                                             gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                  <  2:2489594/101‑1 (MQ=18)                                              cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGaaaaa                                 <  1:201354/101‑1 (MQ=17)                                               aCGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAg                                <  1:362210/101‑1 (MQ=17)                                                 ggATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGcc                              <  1:2769513/101‑1 (MQ=18)                                                  gATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCg                             <  1:4244172/101‑1 (MQ=18)                                                       gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcg                        <  2:3452962/101‑1 (MQ=17)                                                        ccGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgc                       <  1:3001390/101‑1 (MQ=17)                                                         cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcg                      <  2:4536267/101‑1 (MQ=17)                                                         cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcg                      <  2:2861763/101‑1 (MQ=17)                                                           aTGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCa                    <  2:2186319/101‑1 (MQ=17)                                                           aTGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCa                    <  1:1317665/101‑1 (MQ=17)                                                           aTGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCCGCGTATTTGCGCCAAGAAAAAGACGGGGGGCGCa                    >  2:2426434/1‑101 (MQ=9)                                                             ggCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATg                  >  2:4136135/1‑101 (MQ=17)                                                             ggCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATg                  <  1:387663/101‑1 (MQ=17)                                                              gCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGc                 <  2:859161/101‑1 (MQ=18)                                                              gCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGc                 <  1:1099743/101‑1 (MQ=17)                                                               cGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCg                <  2:3713331/101‑1 (MQ=18)                                                                ggAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgg               <  2:1229857/101‑1 (MQ=18)                                                                ggAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgg               <  1:798409/101‑1 (MQ=18)                                                                  agagGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgggg             <  2:2913924/101‑1 (MQ=18)                                                                    agGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcc           <  2:3791676/101‑1 (MQ=17)                                                                     ggAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGccc          <  1:4580844/101‑1 (MQ=17)                                                                      gAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGGCCCGCCCCCCCCCCCCCCGCGGATTTGCGCCCAGAAAAAGCCCGGGCGCGCATGCGGGGgccc         >  2:2860453/1‑101 (MQ=12)                                                                      gAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcccc         <  2:1252564/101‑1 (MQ=17)                                                                      gAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcccc         <  2:1025760/101‑1 (MQ=17)                                                                      gAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcccc         <  1:3534579/101‑1 (MQ=17)                                                                        aTTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCgg       <  1:1735224/101‑1 (MQ=17)                                                                             gccgcGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc  <  1:3774643/101‑1 (MQ=18)                                                                                                      |                                                                              TCGGCTTGGCCTCCGCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......CGGCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAC  >  NC_014034/2330074‑2330243 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG