New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 392474	27 (0.140)	8 (0.040)	7/166	27.6	0.18	intergenic (‑122/+21)	RCAP_rcc00363/trmD	hypothetical protein/tRNA (guanine‑N1)‑methyltransferase
	?	NC_014034	2330313 =	47 (0.210)					intergenic (+288/+24)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

ATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG....GCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGGTCG  >  NC_014034/2330225‑2330413                                                                                              |                                                                                                     aTGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGGCGAgggggcg                                                                                              >  2:3969899/1‑96 (MQ=21)      gggCCCCAGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGCATCGccccc                                                                                         >  2:2137666/1‑98 (MQ=21)              gATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGGGCCGAGGGATCGCCCCGGCGaaaac                                                                                 >  2:2640028/1‑99 (MQ=18)                 cACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGGGGCGTGGCCCCCGCGCAAACCCt                                                                              >  2:2202601/1‑101 (MQ=12)                  cccGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCtt                                                                             <  2:191303/100‑1 (MQ=21)                   ccGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAGCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTa                                                                            <  2:2243913/101‑1 (MQ=25)                           ccGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAc                                                                    <  2:2743233/101‑1 (MQ=25)                           ccGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAc                                                                    <  2:689728/101‑1 (MQ=25)                           ccGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGGGCCGGGGCCTCGCCCCCGCGAAAACCCCTAGTAAACAc                                                                    >  2:3241828/1‑101 (MQ=12)                             gggCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccg                                                                  <  1:1435186/101‑1 (MQ=25)                               gcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGCGGGGGCGCCTCCGCGGAAACCCCTTGTAAAGaacccc                                                                >  1:3392350/1‑96 (MQ=2)                               gcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGCAGCGCCCCGGCGAAATCCCCTAGTAAAAAacgcc                                                                >  1:4179500/1‑101 (MQ=16)                                cggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCTCCTCGGCGAAATCCCTTAGTAAAGAccgccc                                                               <  1:3960877/101‑1 (MQ=21)                                 ggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGGGCCCGGGCATCGCCCCCGCGAAAAACCCTCGTAAAAAacgcccc                                                              >  1:3042813/1‑100 (MQ=2)                                   cTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGGGGCATCGCCTCGGCGAAAACCCCTTGTAAAAACCGCCcccg                                                            >  2:4078441/1‑101 (MQ=12)                                    tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGGCCCGGCGCCCCCTCGGCCGAATCCCCTAATGAAAAacgcccgccc                                                           >  2:3883915/1‑99 (MQ=2)                                    tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGCATCGCCTCCGCGAAAAACCTCTGTAAAAAAAGCCCGCgg                                                           >  2:3823067/1‑101 (MQ=9)                                      tccccgggggCCAGAGATCCCGGGGGGCGGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGAc                                                         <  2:2942036/95‑1 (MQ=18)                                       cACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGGGGAGCCCCG.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACa                                                        <  2:3254669/101‑1 (MQ=25)                                       cACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGGGGGATCGCCTCGGCGAAAACCCTTTGTTAAAACCGCCCGCGGACa                                                        >  2:3000139/1‑101 (MQ=12)                                            ggggCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGGATCGCCCCCGCGGAAAACCTTAGTAAAGAACGCCCGCGGACAgggga                                                   >  1:2308054/1‑99 (MQ=9)                                                 cAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCCTCGCCCCGGCGAAAAACCCTAGGAAAAAACGCCCGCCGGCACGGCTCCgca                                              >  2:1757986/1‑99 (MQ=2)                                                 cAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGGATCGCCCCGGCGAAAACCCTTAGTAAAGACCGCCCGCGGGCAgggggcccca                                              >  2:3484652/1‑94 (MQ=12)                                                  aaaGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAg                                             <  1:1485819/101‑1 (MQ=21)                                                   aaGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGGGGGATCGCCCCCGCGGAAAACCCTAGTAAAAAACGCCCCCGGGCAAGGGGCCGCAgg                                            >  1:3456122/1‑101 (MQ=0)                                                   aaGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGGGTCGCCCCGGCGAAATACCCTTGTAAAAACCGCCCGCGGACAGGGGACCGAAgg                                            >  2:86705/1‑101 (MQ=9)                                                    aGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGTGCCGAGGCCTCGCCTCCGCGAAAACCCCTCGTAAAGAACCCCCCCGGGCAGGGAGCCGaaagg                                           >  1:2033442/1‑98 (MQ=2)                                                     gATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGCCGAGGGATCGCCCCGGCGAAAACCCCTAGTAAAAAACCCCCCCGGACAGGGATCCGAAgggc                                          >  1:662947/1‑99 (MQ=9)                                                                  gggggg....gCCCCCGGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCa                          <  1:682636/99‑1 (MQ=255)                                                                  cgggggcggagCCCCC.GGCGGGTCGCCGAGGCATCGCCCCGGCGAAAACCCTTAGTAAAAACCGCCCGCGGGCAGGGATCCGAAGGGCGCCCTCTTCGGGa                             >  1:3381157/11‑101 (MQ=25)                                                                   gggggcggagCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGAt                            <  1:1313932/92‑1 (MQ=255)                                                                    ggggcggagCCCCC.GGCGGGGCGCCGAGGCATCGCCCCCGCGAAATCCCCTAGTAAAGACCCCCCCCGGACAGGGATCCGAAGGGCGCCTTCTTCGGGGTc                           >  2:4225383/9‑101 (MQ=25)                                                                      ggcggagCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCAc                         <  1:1408444/95‑1 (MQ=255)                                                                         ggagCCCCC.GGCGGGTCGCCGAGGGATCCCCCCCGCGAAAAACCTTAGTAAAAAACGCCCGCGGACAGGGGTCCGAAGGTCGCCTTCTTCTGGATCAcccc                      >  2:83369/4‑100 (MQ=255)                                                                           cgCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCt                    <  2:1218477/100‑1 (MQ=255)                                                                             ccccc.GGCGGGTCGCCGAGGCATCGCCCCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCCGGATCACCCGCTGt                  >  2:2720050/1‑101 (MQ=255)                                                                              cccc.TGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGtt                 <  1:2607697/101‑1 (MQ=255)                                                                                 c.ggcggGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTccc              <  2:1445008/101‑1 (MQ=255)                                                                                   ggcggGTCGCCGAGGGATCGCCTCGGCGAAATCCCTTAGTAAAAAACGCCCGCGGGCAGGGATCCGAAGGGCGCCTTCTTCGGGGTCACCCGCCGTTcccc             >  2:125578/1‑101 (MQ=255)                                                                                   ggcggGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTcccc             <  1:2640199/101‑1 (MQ=255)                                                                                      gggTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGt          <  2:4288254/101‑1 (MQ=255)                                                                                      gggTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGt          >  1:267715/1‑101 (MQ=255)                                                                                         tCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGa       >  1:494632/1‑101 (MQ=255)                                                                                          cGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAg      >  1:2819822/1‑101 (MQ=255)                                                                                          cGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAg      <  1:2915498/101‑1 (MQ=255)                                                                                          cGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAg      >  2:4255356/1‑101 (MQ=255)                                                                                          cGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAg      <  2:171811/101‑1 (MQ=255)                                                                                            ccGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgt    >  1:2265781/1‑101 (MQ=255)                                                                                            ccGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgt    >  1:3212938/1‑101 (MQ=255)                                                                                             cGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGCCCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgtc   <  2:1308190/101‑1 (MQ=255)                                                                                             cGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgtc   >  2:324764/1‑101 (MQ=255)                                                                                             cGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgtc   >  1:3068496/1‑101 (MQ=255)                                                                                              gAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgtcg  >  2:3863091/1‑101 (MQ=255)                                                                                              gAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGgtcg  >  1:2263647/1‑101 (MQ=255)                                                                                              |                                                                                                     ATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG....GCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCTGTTCCCCGGTCGAGGTCG  >  NC_014034/2330225‑2330413 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG