New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 744688	40 (0.220)	10 (0.050)	9/172	23.9	0.33	intergenic (+73/+139)	idi2/bchO	isopentenyl‑diphosphate delta‑isomerase/magnesium‑chelatase BchO
	?	NC_014034	= 974293	1 (0.000)					intergenic (+173/+86)	RCAP_rcc00884/RCAP_rcc00885	hypothetical protein/hypothetical protein
Rejected: Position hash score below cutoff.

CATGATCTTTCCGCCGGTGACGGCC.TGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTGCGGGGGG  >  NC_014034/744588‑744782                                                                                                        |                                                                                               ctggttCTTCCCGCGGGTG.CGGCCGTGAGATTGCCCCGGGGGCGCGCTTGCCCCTGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTg                                                                                                <  1:2916727/96‑1 (MQ=12)   tgttCTTCCCGCGGGTGCGGGCG.TGAGTTTCCGCCGGGGGCGCGCTTGCGCCGGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTggg                                                                                              <  1:2934559/98‑1 (MQ=18)      tctccccgcggGGGACGGCC.TGAGTTTCCGCCCGGGGCTCGCTTGCGCCTGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCa                                                                                           <  1:579974/96‑1 (MQ=21)      tctccccgccgGCGGCGCCT.GGAGTTTCCGCCGGGGGCGCCCTGGCGCCCGGGGCGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCa                                                                                           <  1:2105134/96‑1 (MQ=9)        tttCCGCCGGTGACGGCC.TGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCG.CC.GGGGGCTCCGCCCCCCGGCCCCCGGGGTATTTGGGGGAAg                                                                                         >  2:1159268/1‑101 (MQ=37)          tCCGCGGGGGAGGGCC.TGAATTTCCCCCCGGGGCCCGCTTCCGCCGCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGat                                                                                       <  2:3894313/101‑1 (MQ=17)           ccggcgGTGACGGCC.GGGGTTTCCGCGCGGGGCGCGTTTGCGCCTCGGGCGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGatg                                                                                      <  2:1517523/101‑1 (MQ=18)           ccgccgGTGACGGCC.TGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCC.GGGGGGCCCCCCCCCCCCCCCCCGGGGGATTTtgggggagag                                                                                       >  1:2473119/1‑95 (MQ=255)            cgccgTTGACGCCC.GGAGTTTCCGCCGGGGGCGCGCTTGCGCCTCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGatga                                                                                     <  2:2388024/101‑1 (MQ=21)                ggggccGGCC.TGAGTTTCCGCCGGGGGCGCGCTTGCGCCTCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGatgaaatg                                                                                 <  1:2411677/96‑1 (MQ=21)                ggTGCCGCCG.TGAGATTGCGCCGGGGGCGCGCTTGCCCCTGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGatgaaatg                                                                                 <  2:3829964/101‑1 (MQ=18)                 gTGCCGGCC.TGAGTTTCCGCCGGGGGCGCGCTTGCGCCTCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGatgaaatga                                                                                <  1:183849/101‑1 (MQ=21)                    gcGGCC.TGAGATTCCGCCGGGGGCGCGCTTGCGCCGCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAaatgaatg                                                                             <  1:3389211/100‑1 (MQ=21)                    aCGGCC.TGAGTTCGCGCCGGGGGCGCCCCCGCCCGGGGCGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAaatgaatg                                                                             <  2:3550350/101‑1 (MQ=9)                      ggCC.TGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCG.CCGGGGGGCCCCGCCCCGGGCCCCCCGGG.GATTTGGGGCCAGatggaaaggattac                                                                           >  1:1235267/1‑93 (MQ=25)                         ccggagtTTTCGCCGGGGGCGCGGTTGCCCCTGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACtt                                                                         <  1:2383970/98‑1 (MQ=18)                           tGAGTTTTCGCCGGGGGCGCGCTTGCGCCGCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTc                                                                       <  1:3031199/101‑1 (MQ=21)                           tGAGTTTCCGCCGGGGGCGCGCTTGCGCCTCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTc                                                                       <  1:916986/101‑1 (MQ=21)                           tGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCG.CC.GGGGGGTCCGCCCCCCGACCCCCCGGGGATTTTGGGGAAGATGAAAAGAAAGAATTTc                                                                       >  2:3480757/1‑101 (MQ=21)                                  tCGCCGGGGGCGCGCTTGCGCCTGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTgc                                                                <  2:3922010/101‑1 (MQ=255)                                  ccGCCCGGGGCGCGCTGGCCCCGCGGGCGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTgc                                                                <  2:770957/100‑1 (MQ=255)                                   cGCGCGGGGCGCGCTTGCCCCTGGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTgcg                                                               <  1:3481009/101‑1 (MQ=21)                                        ggggGGCGCTGGCCCCCGGGGCCTCCCG.CC.GGGGGCTCCTCCCCCGGACCCCCGGGATATTGGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGt                                                          <  2:462184/101‑1 (MQ=18)                                          ggccccctcgcgcCCCGGGCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTAc                                                        <  2:1523525/92‑1 (MQ=21)                                           gccctctgccgcCTCGGGCCCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACa                                                       <  2:1518883/92‑1 (MQ=21)                                                cTTGCGCCTCGGGCGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTg                                                  <  1:1000198/101‑1 (MQ=255)                                                 tgccgcCGCGGGCCCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGt                                                 <  2:258906/98‑1 (MQ=25)                                                     cccgcGGCCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCa                                             <  1:2623875/97‑1 (MQ=255)                                                        tggggCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCAccc                                          <  2:3949053/99‑1 (MQ=255)                                                           ggCGCCCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTg                                       <  1:1159362/101‑1 (MQ=255)                                                            gccccccG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGc                                      <  2:3150801/97‑1 (MQ=255)                                                             cGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTgat                                     <  1:785972/101‑3 (MQ=255)                                                                      c.gGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTg                             <  2:824596/101‑1 (MQ=255)                                                                      c.gGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTg                             <  2:1235171/101‑1 (MQ=255)                                                                      c.gGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTg                             >  1:2150029/1‑101 (MQ=255)                                                                      c.gGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTg                             <  1:440705/101‑1 (MQ=255)                                                                        gggggCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTgg                            <  2:966107/101‑1 (MQ=255)                                                                         ggggCTACGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGc                           <  2:163771/101‑1 (MQ=255)                                                                          gggCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCa                          <  1:2876660/101‑1 (MQ=255)                                                                             cTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCaaaa                       <  1:3132795/101‑1 (MQ=255)                                                                              tCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAAt                      <  1:727848/101‑1 (MQ=255)                                                                              tCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAAt                      <  1:1388731/101‑1 (MQ=255)                                                                              tCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAAt                      <  1:74741/101‑1 (MQ=255)                                                                                cGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATAc                    <  2:1729590/101‑1 (MQ=255)                                                                                   ccccGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGcc                 <  2:330489/101‑1 (MQ=255)                                                                                           ccccGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCCCCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTg         <  2:593689/101‑1 (MQ=255)                                                                                           ccccGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTg         <  1:536319/101‑1 (MQ=255)                                                                                           ccccGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTg         <  2:2472935/101‑1 (MQ=255)                                                                                            cccGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTGc        <  1:1831255/101‑1 (MQ=255)                                                                                                  atatTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTGCgggggg  <  2:2107862/101‑1 (MQ=255)                                                                                                        |                                                                                               CATGATCTTTCCGCCGGTGACGGCC.TGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCG.CC.GGGGGCTCCGCCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGCAAAATACGCCGGGGGGTGCGGGGGG  >  NC_014034/744588‑744782 Base quality scores:  ATCG  < 3 ≤  ATCG  < 24 ≤  ATCG  < 31 ≤  ATCG  < 35 ≤  ATCG  < 41 ≤  ATCG