New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	744657 =	51 (0.230)	32 (0.140)	5/198	32.7	0.41	intergenic (+42/+170)	idi2/bchO	isopentenyl‑diphosphate delta‑isomerase/magnesium‑chelatase BchO
	?	NC_014034	= 2330174	41 (0.180)					intergenic (+149/+163)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

GGCTCAAGATCTATATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGC  >  NC_014034/744557‑744757                                                                                                     |                                                                                                      gggtCAAGATCTATATCGAGCAGCACCGCGACTTGATCTTTCCGCCGGTGACGGCCGGAGATTTCGCCCGGGGCGCGCTTGCGCTTCGGGCGACCCGCCgg                                                                                                       <  2:2440139/98‑1 (MQ=255)  gCTCAAGATCTAGATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCcgg                                                                                                      >  1:2428290/1‑101 (MQ=255)   cTCAAGATCTATATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGTTTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCgggg                                                                                                     <  2:885189/101‑1 (MQ=255)    taaaGATCTAGACGGAGCAGCCCCGCGCCAGGATTTTCCCGCCGGTGCCGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCggggg                                                                                                    <  2:3015032/99‑1 (MQ=255)     cAAGATCTATATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGc                                                                                                   >  1:3061280/1‑101 (MQ=255)      aaGATCTATATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCcgggggg                                                                                                  >  1:4127208/1‑99 (MQ=255)       aGATCTATAGCGAGCAGCACCGCGACATGATCTTTCCGCCGGGGACGGCTTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTc                                                                                                 <  2:1813635/101‑1 (MQ=255)        gATCTATATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCggggggccc                                                                                                >  1:742562/1‑97 (MQ=255)         aTCTAGATCGAGCAGCCCCGCGACATGATCTTGCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCg                                                                                               <  2:1491826/101‑1 (MQ=255)            tataTCGAGCAGCCCCGCGACATGATCTTCCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.ccc                                                                                           <  1:3309181/101‑1 (MQ=255)            tataCCGAGCAGCCCCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.ccc                                                                                           <  1:2788424/101‑1 (MQ=255)              tatCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTGGGGCGCCCCGCCGGGGGCTCCG.ccccc                                                                                         <  2:3394686/101‑1 (MQ=255)              taccGAGCACCCCCGCGACATGATCTTCCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.ccccc                                                                                         <  2:4019706/98‑1 (MQ=38)               atggggcagccCCGCAACATGATCTTCCCGCCGGTGCCGGCCTGAGTTTCCGCCGGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCg                                                                                        <  2:3061059/96‑1 (MQ=25)               accGAGCAGCCCCGCGACATGTTTTTCCCGCCGGTGCCGGCCTGAGTTTCCGCCCGGGGCCCGCTGGCCCCTGGGGCGCCCCGCCGGGGGCTCCG.CCCCCg                                                                                        <  1:19598/99‑1 (MQ=19)                     cgccccgccgACATGTTCTTCCGGCGGGGGCCGGCCGGAGTTTCCGCCGGGGGCGCCCTTGCCCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGAcccc                                                                                  <  1:3192187/93‑1 (MQ=12)                      agcaCCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGGTCCG.CCCCCGGGccccc                                                                                 >  2:1452110/1‑101 (MQ=255)                       cgaCCGAGACATGTTCTTCCCGGCGGGGCCGGCTTGAGATTTCGCCCGGGGCGCGCTTCCCCCCGGGGCCCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCg                                                                                <  1:3545900/99‑1 (MQ=16)                       cccccGCGACGTGATCTTCCCGCCGGGGCCGGCCTGAGATTCCGCCCGGGGCGCGCTTGCCCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCg                                                                                <  2:1979812/98‑1 (MQ=25)                          ccgttaCATGTTCTTCCCGCCGGTGCCGGCCTGGGTTTCCGCCGGGGGCGCGCTTGCGCCGGGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGa                                                                             <  2:2364372/96‑1 (MQ=18)                           cgcgACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGGGCCC.CCCCCCGACCCCCcggca                                                                            >  2:1203875/1‑99 (MQ=38)                             cgACATGTTCTTCCCGCCGGTGCCGGCCTGAGATTCCGCCCGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGatat                                                                          <  2:4086688/101‑1 (MQ=37)                              gACATGTTCTTCCCGCCGGTGACGGCCTGAGTTTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATAtt                                                                         <  2:3839195/101‑1 (MQ=37)                               aCATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGGCCCG.CCCCCGGCCCCCCCGGGTAttt                                                                        >  1:3492117/1‑101 (MQ=38)                               aCATGATCTTCCCGCCGGTGCCGGCCTGAGATTCCGCCCGGGCCGCGCTTGCCCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATAttt                                                                        <  2:901553/101‑1 (MQ=25)                                cATGATCTTCCCGCCGGTGACGGCCTGAGATTTCGCCGGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTg                                                                       <  2:2428133/101‑1 (MQ=255)                                 aTGTTCTTTCCGCCGGTGGCGCCCTGAGATTCCGCCCGGGGCGCGCTTGCCCCTGGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTgg                                                                      <  1:67831/101‑1 (MQ=25)                                 aTGTTCTTCCCGCGGGGGACGGCGTGAGTTTTCGCCCGGGGCCCGCTGGCGCCTGGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTgg                                                                      <  1:2125448/101‑1 (MQ=18)                                 aTGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGGCCCGCCCCCCGGCCCCCCggggattttg                                                                       >  1:128731/1‑94 (MQ=37)                                  ttttttccccgcggGTGCGGGCCTGGGATTCCACCGGGGGCGCGCTGCCCCCTCGGGCAACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTggg                                                                     <  2:2887454/93‑1 (MQ=12)                                     tCTTCCCGCGGGTGGCGGCCTGAGATTTCGCCCGGGGCGCGCTGGCGCCTCGGGCGACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCa                                                                  <  1:635542/101‑1 (MQ=25)                                      cTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.CCCCCGGGCCCCCGGGATATTTGGGGCaa                                                                 >  2:2214964/1‑101 (MQ=255)                                       tttCCGCCGGTGACGGCCTGAGTTTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAg                                                                <  1:2943723/101‑1 (MQ=255)                                            gccgGTGGCGGCCTGAGTTTGCGCCGGGGGCGCGCTGGCCCCGGGGGCGACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGatgaa                                                           <  1:1203968/101‑1 (MQ=18)                                            gccgGTGGCGGCCTGAGATTCCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGatgaa                                                           <  2:2897948/101‑1 (MQ=255)                                              cgggggcGGCCTGAGCTTGCGCCCGGGGCCCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGatgaaat                                                         <  1:3221075/95‑1 (MQ=21)                                                  gccGGCCGGAGTTTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAaatgaat                                                     <  1:2330314/99‑1 (MQ=255)                                                   gcgcccggagaTTCCCCCCGGGGCGCGCTTGCCCCCCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAaatgaatg                                                    <  2:2501238/94‑1 (MQ=18)                                                   aCGGCCGGAGTTTCCGCCCGGGGCGCGCTTGCGCCGCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAaatgaatg                                                    <  1:776081/101‑1 (MQ=21)                                                       ccTGAGTTTTCGCCGGGGGCGCGCTGGCGCCTCGGGCCCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACtt                                                <  1:3051089/101‑1 (MQ=21)                                                       ccTGAGGTTCCGCCCGGGGCGCGCTTGCGCCTCGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACtt                                                <  1:2227241/101‑1 (MQ=255)                                                                tCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTgc                                       >  2:2070494/1‑101 (MQ=255)                                                                ccGCCGGGGGCGCCCTCGCGCCCGGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTgc                                       <  2:2486506/100‑1 (MQ=18)                                                                    cgggggCGCGCTTGCCCCTGGGGCCCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTgcggcg                                   <  2:727829/99‑1 (MQ=21)                                                                      ggggCGCGCTCGCGCCTGGGGCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGt                                 <  2:962129/101‑1 (MQ=255)                                                                                         ggCGCCCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTg              <  1:2215103/101‑1 (MQ=255)                                                                                            gACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCtt           <  1:4173630/101‑1 (MQ=255)                                                                                              cccGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCtttt         <  1:1605573/101‑1 (MQ=255)                                                                                                cgccgGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATCACTTTCCGTCTGCTGCGGTACAGCCTGTCCCACCCCTGCTTTTcc       <  1:3984666/101‑1 (MQ=255)                                                                                                 gccgGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCt      <  1:2887413/101‑1 (MQ=255)                                                                                                    gggggCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTgg   >  1:2779266/1‑101 (MQ=255)                                                                                                    gggggCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTgg   <  1:3399419/101‑1 (MQ=255)                                                                                                     ggggCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGc  <  1:2776080/101‑1 (MQ=255)                                                                                                     |                                                                                                      GGCTCAAGATCTATATCGAGCAGCACCGCGACATGATCTTTCCGCCGGTGACGGCCTGAGATTTCGCCCGGGGCGCGCTTGCGCCTCGGGCGACCCGCCGGGGGCTCCG.CCCCCGGACCCCCGGGATATTTGGGGCAAGATGAAATGAATGACTTTCCGTCTGCGGCGGTACAGCCTGTCCCACCCCTGCTTTTCCTTGGC  >  NC_014034/744557‑744757 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 27 ≤  ATCG  < 35 ≤  ATCG  < 41 ≤  ATCG