New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	744650 =	263 (0.580)	69 (0.150)	7/198	37.2	0.23	intergenic (+35/+177)	idi2/bchO	isopentenyl‑diphosphate delta‑isomerase/magnesium‑chelatase BchO
	?	NC_014034	2330309 =	211 (0.460)					intergenic (+284/+28)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

AAAGCAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGG......................................................................................  <  NC_014034/744749‑744650 .....................................................................................................CGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCG  >  NC_014034/2330309‑2330393                                                                                                     |                                                                                      AAAGCAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGG                                                                                       >  1:8632108/1‑101 (MQ=11) AAAGCAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGG                                                                                       >  1:5834275/1‑101 (MQ=11)   AGCAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCG                                                                                     >  2:2407731/1‑101 (MQ=32)     CAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGgggc                                                                                   >  2:6478885/1‑97 (MQ=11)     CAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCC                                                                                   >  2:2231904/1‑101 (MQ=32)      AGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCcgcc                                                                                  >  2:7436904/1‑97 (MQ=14)      AGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGgcc                                                                                  >  2:2364203/1‑98 (MQ=17)      AGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCc                                                                                  >  1:3018340/1‑100 (MQ=17)      AGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCc                                                                                  >  2:3188447/1‑100 (MQ=17)      AGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCc                                                                                  >  2:2811275/1‑100 (MQ=17)       GGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCcg                                                                                 >  1:6935882/1‑99 (MQ=17)       GGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCcc                                                                                 >  1:5375433/1‑99 (MQ=17)        GGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGGGCCcgg                                                                                >  1:8859428/1‑98 (MQ=9)         GGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGGGCCccgg                                                                               >  2:4195033/1‑97 (MQ=9)           TGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCcgcggg                                                                             >  1:5550824/1‑95 (MQ=12)           TGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCcgcggc                                                                             >  1:7045054/1‑95 (MQ=12)           TGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCcccggg                                                                             >  1:4145039/1‑95 (MQ=12)            GGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGgcccggggg                                                                            >  1:329998/1‑92 (MQ=255)            GGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCccccgcg                                                                            >  1:6484205/1‑94 (MQ=12)              GACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCcccggggca                                                                          >  2:2479107/1‑92 (MQ=255)              GACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCccacgcggc                                                                          >  2:6150898/1‑92 (MQ=255)                                                        tggggCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGA                                <  2:5690915/96‑1 (MQ=25)                                                         ggggCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGAT                               <  2:631264/97‑1 (MQ=21)                                                          gggCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATC                              <  1:2600145/98‑1 (MQ=18)                                                          ggCCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATC                              <  2:1800591/99‑1 (MQ=0)                                                           ggccaaggATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCC                             <  2:1072188/93‑1 (MQ=9)                                                            gCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCG                            <  1:3913409/100‑1 (MQ=14)                                                             CCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGA                           <  1:5332044/101‑1 (MQ=11)                                                              CAAAGATCCCGGGGGTCGGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAA                          <  2:7300537/101‑1 (MQ=0)                                                               AAAGATCCCGGGGGTCGGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                         <  2:4452820/101‑1 (MQ=0)                                                               AAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCTGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                         <  1:4562716/101‑1 (MQ=0)                                                               AAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                         <  2:8231772/101‑1 (MQ=1)                                                               AAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                         <  2:4819042/101‑1 (MQ=1)                                                               AAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                         <  2:1662097/101‑1 (MQ=1)                                                               AAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                         <  2:2350690/101‑1 (MQ=1)                                                                     CCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCC                   <  1:7144184/101‑1 (MQ=11)                                                                      CCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCT                  <  1:3622330/101‑1 (MQ=1)                                                                      CCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCT                  <  1:4263030/101‑1 (MQ=1)                                                                       CGGGGGTCCGGGGGCGGCGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTT                 <  2:3884057/101‑1 (MQ=1)                                                                       CGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTT                 <  2:3389751/101‑1 (MQ=1)                                                                       CGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTT                 <  1:2306776/101‑1 (MQ=1)                                                                       CGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTT                 <  1:7182019/101‑1 (MQ=1)                                                                        GGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTC                <  2:7536419/101‑1 (MQ=1)                                                                        GGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTC                <  2:3327024/101‑1 (MQ=1)                                                                         ggaGTCCGGGGGCGGAGCCCCCGGGGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCT               <  2:9128374/98‑1 (MQ=0)                                                                         GGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCT               <  2:4576452/101‑1 (MQ=1)                                                                         GGGGTCCGGGGGCGAGGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCT               <  2:5351079/101‑1 (MQ=14)                                                                         GGGGGCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCT               <  1:7322/101‑1 (MQ=1)                                                                          GGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTT              <  2:6494659/101‑1 (MQ=1)                                                                          GGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTT              <  2:6091866/101‑1 (MQ=1)                                                                          GGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTT              <  1:3963894/101‑1 (MQ=1)                                                                           GGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTC             <  2:5644090/101‑1 (MQ=1)                                                                           GGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTC             <  1:2986037/101‑1 (MQ=1)                                                                           GGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTC             <  1:7414075/101‑1 (MQ=1)                                                                            GTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCG            <  1:5555653/101‑1 (MQ=1)                                                                             TCCGGGGGCGGAGCCCTCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGG           <  2:7949400/101‑1 (MQ=1)                                                                             TCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGG           <  2:8469746/101‑1 (MQ=1)                                                                               CGGGGGCGGCGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGA         <  1:304192/101‑1 (MQ=1)                                                                               CGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGA         <  2:1030154/101‑1 (MQ=1)                                                                                GGGGGCGGAGCCCCCGGCGGGGCGCCGAGGGATCGCCCCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGGCGCCTTCTTCGGGAg        >  2:6797473/1‑100 (MQ=0)                                                                                 GGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATC       <  2:7358390/101‑1 (MQ=1)                                                                                 GGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATC       <  2:3778070/101‑1 (MQ=1)                                                                                  GGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCA      <  1:3998006/101‑1 (MQ=1)                                                                                  GGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCA      <  1:174713/101‑1 (MQ=1)                                                                                  GGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCA      <  2:6609037/101‑1 (MQ=1)                                                                                   GGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCAC     <  1:1405047/101‑1 (MQ=1)                                                                                    GCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACC    <  1:5679867/101‑1 (MQ=1)                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGGCAGGGATCCGAAGGTCGCCTTCTTCGGGATAACCCG  >  2:449526/1‑101 (MQ=0)                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCG  <  2:2243939/101‑1 (MQ=1)                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCG  <  1:2442620/101‑1 (MQ=1)                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGGCGCCTTCTTCGGGATCACCCc  >  2:8748282/1‑100 (MQ=1)                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAAACCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGGCGCCTTCTTCGGGATCACCCG  >  2:7882979/1‑101 (MQ=0)                                                                                                     |                                                                                      AAAGCAGGGGTGGGACAGGCTGTACCGCCGCAGACGGAAAGTCATTCATTTCATCTTGCCCCAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGG......................................................................................  <  NC_014034/744749‑744650 .....................................................................................................CGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCG  >  NC_014034/2330309‑2330393 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG