New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	2330179 =	37 (0.160)	42 (0.180)	21/194	17.1	0.25	intergenic (+154/+158)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2555842 =	218 (0.890)					intergenic (‑705/+41)	mraZ/RCAP_rcc02384	protein MraZ/Mrp/NBP35 family protein
Rejected: Position hash score below cutoff.

AGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......CGG.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAT  >  NC_014034/2330110‑2330279                                                                                        |                                                                                                     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                                                                      <  2:4323755/101‑1 (MQ=18)         gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                                                      <  2:2489664/101‑1 (MQ=18)         gcACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGaaaa                                                                      <  2:1962021/101‑1 (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                                                 <  2:2058113/101‑1 (MQ=18)                              agagGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCgggg                                                 <  2:3095750/101‑1 (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                                      <  1:801459/101‑1 (MQ=18)                                         gccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAc                                      <  2:3783694/101‑1 (MQ=18)                                          ccgcGCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCAcc                                     <  1:1504161/101‑1 (MQ=18)                                           cgcgCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACcg                                    <  1:3569662/101‑1 (MQ=18)                                           cgcgCAGGCGCGGCGACCCGGGC....GGGGGCTCCGC.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACcg                                    <  1:2044245/101‑1 (MQ=18)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg            >  1:446818/11‑101 (MQ=255)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg            >  1:2599669/11‑101 (MQ=255)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg            >  1:562456/11‑101 (MQ=255)                                                                              ggggctccgcccccGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTgg            >  2:200388/11‑101 (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)                                                                                        |                                                                                                     AGAGCGCCGCACGGATCGGCCGATGGCGGAGAGGAATTTCGCCGCGCAGGCGCGGCGACCCGGGC....G.......CGG.......CCCCGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAT  >  NC_014034/2330110‑2330279 Base quality scores:  ATCG  < 3 ≤  ATCG  < 19 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG