New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2330290	34 (0.180)	28 (0.150)	8/174	24.8	0.48	intergenic (+265/+47)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2880561 =	27 (0.130)					coding (1024/1053 nt)	pdxA	4‑hydroxythreonine‑4‑phosphate dehydrogenase
Rejected: Position hash score below cutoff.

TCATGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GC.........C..CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGC  >  NC_014034/2880461‑2880635                                                                                                     |                                                                                                tCATGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCg                                                                                                 >  1:2179043/1‑101 (MQ=255) tCATGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCg                                                                                                 <  2:2178898/101‑1 (MQ=255)  cATGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCgg                                                                                                >  2:463863/1‑101 (MQ=255)  cATGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCgg                                                                                                <  2:38558/101‑1 (MQ=255)    tGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCgggg                                                                                              <  2:3356072/101‑1 (MQ=255)    tGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCgggg                                                                                              >  2:1155614/1‑101 (MQ=255)     gggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCggggg                                                                                             <  2:780633/101‑1 (MQ=255)     gggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCggggg                                                                                             <  2:622115/101‑1 (MQ=255)     gggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCggggg                                                                                             <  2:3207458/101‑1 (MQ=255)     gggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCggggg                                                                                             <  2:1914654/101‑1 (MQ=255)     gggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCggggg                                                                                             <  2:158943/101‑1 (MQ=255)      ggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGc                                                                                            >  1:2659411/1‑101 (MQ=255)      ggTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGc                                                                                            <  2:1811773/101‑1 (MQ=255)        tCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCag                                                                                          <  2:891732/101‑1 (MQ=255)        tCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCag                                                                                          <  1:737615/101‑1 (MQ=255)         cgcgATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCaga                                                                                         <  2:3331344/101‑1 (MQ=255)          gcgATCCCCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCCTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCagag                                                                                        <  1:954009/101‑1 (MQ=255)          gcgATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCagag                                                                                        <  1:3787099/101‑1 (MQ=255)           cgATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGc                                                                                       <  2:2875633/101‑1 (MQ=255)            gATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGcc                                                                                      >  2:252357/1‑101 (MQ=255)             aTCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGccc                                                                                     >  1:573300/1‑101 (MQ=255)              tCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGcccc                                                                                    <  2:1537346/101‑1 (MQ=255)              tCACCTCGCGCAAGGGCGGCAGCCCGTCAANCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGcccc                                                                                    <  1:1943043/101‑1 (MQ=255)               ccccTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGccccc                                                                                   <  1:3816278/99‑1 (MQ=255)                    cgcgCAGGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTAAAATACCCCGGGGGTCCGGGGGCAGACCCCCcggcg..........g                                                                    <  2:3797957/101‑1 (MQ=37)                    cgcgCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCcggcg..........g                                                                    >  2:863297/1‑101 (MQ=255)                    cgcgCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCcggcg..........g                                                                    >  1:4234234/1‑101 (MQ=255)                     gcgcAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCggcg..........gc                                                                   >  2:2608475/1‑101 (MQ=255)                      cgcAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCggcg..........gcg                                                                  >  2:2793093/1‑100 (MQ=255)                      cgcAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCggcg..........gcg                                                                  >  2:865639/1‑100 (MQ=255)                      cgcAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCggcg..........gcg                                                                  >  1:1394461/1‑100 (MQ=255)                         aaGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GC.........g..cgt                                                    >  2:4033388/1‑100 (MQ=255)                         aaGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GC.........g..cgg                                                    >  2:2860165/1‑100 (MQ=255)                          aGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCcggccggggggc                                                                        >  1:745073/1‑93 (MQ=255)                             gcggcAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GC.........g..cggcaca                                                >  1:4144279/1‑96 (MQ=255)                                 cAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GC.........g..cgtcacagccg                                            >  2:452169/1‑92 (MQ=25)                                                                     ttttCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCcgc                   >  2:3435108/1‑101 (MQ=2)                                                                       ttCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGa                 >  1:3976822/1‑101 (MQ=9)                                                                       ttCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGa                 >  2:1881732/1‑101 (MQ=9)                                                                            cTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGa            >  2:4056388/1‑101 (MQ=9)                                                                                cTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACtgt        >  2:1285584/1‑101 (MQ=12)                                                                                cTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACtgg        >  2:1522827/1‑100 (MQ=9)                                                                                    aaaTATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCgg    >  2:2697784/1‑101 (MQ=12)                                                                                    aaaTATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCgg    >  2:231165/1‑101 (MQ=12)                                                                                    aaaTATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCgg    >  1:1396561/1‑101 (MQ=12)                                                                                     aaTATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCggg   >  1:3072557/1‑101 (MQ=12)                                                                                     aaTATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCGGCGCGTCACAGC.........CG.CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCggg   >  1:2563696/1‑101 (MQ=12)                                                                                      atatCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GCGCGTCACAGCCGCGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGc  >  2:2596713/1‑101 (MQ=12)                                                                                                     |                                                                                                TCATGGGTCGCGATCACCTCGCGCAAGGGCGGCAGCCCGTCAATCGCAGCCAAAGCCCGTCCCCTTCCTTTTCATCTTGCTTCAAATATCCCGGGGGTCCGGGGGCAGAGCCCCCGGCG..........GC.........C..CGCCGCCCCCATCTTCGCCGCCATCGTCAAGGCCGCGATCAGACTGTGCGGGC  >  NC_014034/2880461‑2880635 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG