New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2330295	22 (0.100)	23 (0.110)	8/192	29.4	0.51	intergenic (+270/+42)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2330296 =	22 (0.100)					intergenic (+271/+41)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

CAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG....GCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCT  >  NC_014034/2330204‑2330395                                                                                                 |                                                                                                     cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGGG....Gcggagcccc                                                                                             <  1:3998271/101‑9 (MQ=38)  aaGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGGG....Gcggagccccc                                                                                            <  2:903932/101‑10 (MQ=38)                    gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC.GGCGGGGCGccccgggcc                                                                              >  1:2942257/1‑94 (MQ=18)                      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)                                                                                                 |                                                                                                     CAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG....GCCCCC.GGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGCT  >  NC_014034/2330204‑2330395 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG