New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	2330179 =	29 (0.130)	32 (0.140)	18/194	25.0	0.21	intergenic (+154/+158)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2555842 =	213 (0.900)					intergenic (‑705/+41)	mraZ/RCAP_rcc02384	protein MraZ/Mrp/NBP35 family protein
Rejected: Position hash score below cutoff.

GCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......CGGCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAT  >  NC_014034/2330088‑2330279                                                                                                     |                                                                                                     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                                                                      <  2:2489594/101‑1 (MQ=18)                               gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                                                      <  1:3297153/101‑1 (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                                                        <  1:1317665/101‑1 (MQ=17)                                             aTGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCa                                                        <  2:2186319/101‑1 (MQ=17)                                             aTGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCCGCGTATTTGCGCCAAGAAAAAGACGGGGGGCGCa                                                        >  2:2426434/1‑101 (MQ=9)                                               ggCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATg                                                      <  1:387663/101‑1 (MQ=17)                                               ggCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATg                                                      >  2:4136135/1‑101 (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                                                   <  1:798409/101‑1 (MQ=18)                                                  ggAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgg                                                   <  2:1229857/101‑1 (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                                             <  2:1025760/101‑1 (MQ=17)                                                        gAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcccc                                             <  1:3534579/101‑1 (MQ=17)                                                        gAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcccc                                             <  2:1252564/101‑1 (MQ=17)                                                          aTTTCGCCGCGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCgg                                           <  1:1735224/101‑1 (MQ=17)                                                               gccgcGCAGGCGC.GGCGACCCGGGC.GGGGGCTCCGCCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc                                      <  1:3774643/101‑1 (MQ=18)                                                                                           ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg            >  2:4474997/11‑101 (MQ=255)                                                                                            gggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTggg           >  1:1616295/10‑101 (MQ=255)                                                                                                tccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCa       <  1:2860669/96‑1 (MQ=255)                                                                                                   gcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAg    >  2:4313328/3‑101 (MQ=255)                                                                                                     ccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAt  >  1:2971959/1‑101 (MQ=255)                                                                                                     |                                                                                                     GCCAAGGGCGGCAACGGCGCGCAGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGC.GGCGACCCGGGC.G.......CGGCCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAT  >  NC_014034/2330088‑2330279 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG