New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 744671	126 (0.540)	26 (0.110)	11/190	21.8	0.22	intergenic (+56/+156)	idi2/bchO	isopentenyl‑diphosphate delta‑isomerase/magnesium‑chelatase BchO
	?	NC_014034	2330184 =	55 (0.220)					intergenic (+159/+153)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

AGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......CGG.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCC  >  NC_014034/2330110‑2330282                                                                                             |                                                                                                   agagCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTgcgc                                                                                 <  1:480302/101‑1 (MQ=18)   agCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCa                                                                               <  1:4254724/101‑1 (MQ=18)   agCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCa                                                                               <  1:3967207/101‑1 (MQ=18)   agCGCCGCACGGATCGGCCGATGGCAGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCa                                                                               <  1:2130277/101‑1 (MQ=18)       ccgcACGGATCGGCGGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa                                                                           <  2:3321482/101‑1 (MQ=17)       ccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa                                                                           <  2:1105057/101‑1 (MQ=18)       ccgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaa                                                                           <  1:3040680/101‑1 (MQ=18)        cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGGTCCGC.......CCCCGCACCCCCCGCGTATTTTCGCCCAGaaa                                                                          >  2:801357/1‑101 (MQ=16)        cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCTCCCCCGGCGTATTTGCGCCAAGaaa                                                                          <  2:4917797/101‑1 (MQ=18)        cgcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaa                                                                          <  1:4583735/101‑1 (MQ=18)         gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                                                         <  2:1962021/101‑1 (MQ=18)         gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                                                         <  2:2489664/101‑1 (MQ=18)         gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                                                         <  2:4323755/101‑1 (MQ=18)          cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaaa                                                                        <  1:4154572/101‑1 (MQ=17)          cACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCCCCCCCCCGGCGTATTTTCGCCAAGaaaaa                                                                        >  2:4553042/1‑101 (MQ=16)                tccgCCGAAGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCTCCCCCGGCGTATTTGCGCCAAGAAAAAGCCggg                                                                  <  1:3197574/98‑1 (MQ=12)                tCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCggg                                                                  <  1:2464376/101‑1 (MQ=18)                tCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCggg                                                                  >  1:1885418/1‑101 (MQ=17)                 cGGCCGATGGCGGAGAGAAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgggg                                                                 <  2:4653288/101‑1 (MQ=17)                   gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGCTGGGGCTC....CGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcg                                                               >  1:1365836/1‑101 (MQ=17)                   gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCgggggg                                                               >  2:780250/1‑99 (MQ=17)                   gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcg                                                               <  2:3213737/101‑1 (MQ=17)                   gCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTAATTGCGCCCAGAAAAAACCGGGgcg                                                               >  1:4682897/1‑101 (MQ=9)                    ccGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgc                                                              <  2:805713/101‑1 (MQ=17)                    ccGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGGATTTTCGCCCAGAAAAAGCCGGGgcgc                                                              >  1:3129840/1‑101 (MQ=12)                     cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcg                                                             <  2:3404209/101‑1 (MQ=17)                     cGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......GGGGCTCCCCCCCCGCACCCCCCGCGGATTTGCGCCCAGAAAAAGACCGGgcgcg                                                             >  2:1677858/1‑101 (MQ=12)                      gATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGgcgcgc                                                            <  2:4327611/101‑1 (MQ=17)                       aTGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGG....GGGGGCTCCGC.......CCCCCCCCCCCCCGCGTCTTTGCGCCCAGAAAAAACCGGGGCGGGCa                                                           >  2:345062/1‑101 (MQ=9)                        tGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCAt                                                          <  1:1143659/101‑1 (MQ=17)                         ggCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATg                                                         <  2:3023837/101‑1 (MQ=17)                          gCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGc                                                        <  1:3887182/101‑1 (MQ=18)                             gagaGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCggg                                                     <  1:1482087/101‑1 (MQ=18)                              agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgggg                                                    <  2:3095750/101‑1 (MQ=18)                              agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgggg                                                    <  2:2058113/101‑1 (MQ=18)                               gagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGc                                                   >  1:4025121/1‑101 (MQ=17)                                agGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGcc                                                  <  2:4964389/101‑1 (MQ=17)                                    aTTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCgg                                              <  1:25900/101‑1 (MQ=17)                                     tttCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGa                                             <  1:3365170/101‑1 (MQ=17)                                      ttCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGAt                                            <  2:4501526/101‑1 (MQ=17)                                         gccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc                                         <  2:3783694/101‑1 (MQ=18)                                         gccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc                                         <  1:801459/101‑1 (MQ=18)                                          ccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAcc                                        <  1:1504161/101‑1 (MQ=18)                                           cgcgCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACcg                                       <  1:2044245/101‑1 (MQ=18)                                           cgcgCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACcg                                       <  1:3569662/101‑1 (MQ=18)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg               >  2:200388/11‑101 (MQ=255)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg               >  1:2599669/11‑101 (MQ=255)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg               >  1:562456/11‑101 (MQ=255)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg               >  1:446818/11‑101 (MQ=255)                                                                               gggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTggg              <  2:467884/92‑1 (MQ=255)                                                                                  ctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCCCCTGGGGcc           >  1:2714118/7‑101 (MQ=255)                                                                                  ccccgcccccGCCCCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGGGCGCAGGGGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGcc           <  1:2370149/95‑1 (MQ=38)                                                                                   tccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCa          <  2:2278230/96‑1 (MQ=255)                                                                                    ccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCaa         >  2:4738882/5‑101 (MQ=255)                                                                                     cgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCaaa        <  1:3366130/98‑1 (MQ=255)                                                                                      gcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAg       <  2:4792911/99‑1 (MQ=255)                                                                                      gcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAg       >  2:4928537/3‑101 (MQ=255)                                                                                       cccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGa      <  2:4705572/100‑1 (MQ=255)                                                                                       cccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGa      <  1:751538/100‑1 (MQ=255)                                                                                        ccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAt     <  2:1957739/101‑1 (MQ=255)                                                                                         cccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtc    <  1:3103278/101‑1 (MQ=255)                                                                                         cccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtc    <  2:916855/101‑1 (MQ=255)                                                                                          ccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcc   <  1:4691920/101‑1 (MQ=255)                                                                                          ccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcc   <  1:1833491/101‑1 (MQ=255)                                                                                          ccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCAGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcc   <  1:4719394/101‑1 (MQ=255)                                                                                           cGCGCCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc  <  1:886004/101‑1 (MQ=255)                                                                                           cGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc  >  1:3879480/1‑101 (MQ=255)                                                                                           cGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc  <  2:3217994/101‑1 (MQ=255)                                                                                             |                                                                                                   AGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......CGG.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCC  >  NC_014034/2330110‑2330282 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG