New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2330295	29 (0.120)	53 (0.230)	18/192	18.3	0.65	intergenic (+270/+42)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2330296 =	29 (0.120)					intergenic (+271/+41)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

ATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG.......................................................................................................  >  NC_014034/2330196‑2330295 ........................................................................................................GCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGC  >  NC_014034/2330296‑2330394                                                                                                     ||||                                                                                                    ATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGC                                                                                                        >  1:3216029/1‑101 (MQ=1) ATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGC                                                                                                        >  1:3796001/1‑101 (MQ=1) ATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGC                                                                                                        >  1:398041/1‑101 (MQ=1)  TTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCG                                                                                                       >  1:2833928/1‑101 (MQ=1)   TTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGTGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGG                                                                                                      <  2:1885281/101‑1 (MQ=1)   TTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGG                                                                                                      <  1:1953920/101‑1 (MQ=1)   TTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGG                                                                                                      <  1:3131388/101‑1 (MQ=1)    TGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGA                                                                                                     >  1:617605/1‑101 (MQ=1)     GCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAG                                                                                                    >  1:979781/1‑101 (MQ=1)      CGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGC                                                                                                   >  1:4920644/1‑101 (MQ=1)      CGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGC                                                                                                   <  1:355764/101‑1 (MQ=1)       GCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCC                                                                                                  >  2:4969887/1‑101 (MQ=1)        CCAAGAAAAAGCCGGGGCGCGCATGCGGGTCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCC                                                                                                 <  2:2713917/101‑1 (MQ=1)        CCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCC                                                                                                 <  2:1804799/101‑1 (MQ=1)        CCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCC                                                                                                 <  2:1180522/101‑1 (MQ=1)        CCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCC                                                                                                 >  2:3844619/1‑101 (MQ=1)         CAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCC                                                                                                >  1:5008006/1‑101 (MQ=1)         CAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCC                                                                                                >  2:3532475/1‑101 (MQ=1)         CAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCC                                                                                                >  1:2161401/1‑101 (MQ=1)          AAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC                                                                                               <  1:4873656/101‑1 (MQ=1)          AAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC                                                                                               >  1:1325208/1‑101 (MQ=1)           AGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                              <  2:3029687/101‑1 (MQ=1)           AGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                              <  1:3618665/101‑1 (MQ=1)           AGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                              <  2:4839135/101‑1 (MQ=1)            GAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGGCCGGGGGCGGAGCCCCCGG                                                                                             >  2:1926417/1‑101 (MQ=1)             AAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGC                                                                                            >  2:4462702/1‑101 (MQ=1)              AAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCG                                                                                           >  2:4991273/1‑101 (MQ=1)                AAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGG                                                                                         >  2:3487107/1‑101 (MQ=1)                AAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGG                                                                                         >  1:4649269/1‑101 (MQ=1)                  GCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTC                                                                                       <  2:4527515/101‑1 (MQ=1)                  GCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTC                                                                                       <  2:3977837/101‑1 (MQ=1)                     GGGGCGCGCATGCGGGGCCCCGGATCACCGGGGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGggggc                                                                                    >  1:4475354/1‑96 (MQ=0)                     GGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGggggc                                                                                    >  1:1939194/1‑96 (MQ=1)                     GGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGggggc                                                                                    >  2:226544/1‑96 (MQ=1)                     GGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAGCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCC                                                                                    >  1:3519875/1‑101 (MQ=0)                      GGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCG                                                                                   >  1:3734938/1‑101 (MQ=11)                        GCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGggggccgg                                                                                 >  2:284622/1‑93 (MQ=0)                          GCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGC                                                                               <  1:4047848/101‑1 (MQ=11)                            GCATGCGGGGCCCCGGATCCCCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCAT                                                                             <  2:2842084/101‑1 (MQ=12)                                GCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCC                                                                         <  2:4189205/101‑1 (MQ=25)                                 gGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCT                                                                        <  2:1949216/100‑1 (MQ=25)                                 CGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCT                                                                        <  2:4871098/101‑1 (MQ=25)                                  GGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTC                                                                       <  2:3760319/101‑1 (MQ=25)                                        CCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAA                                                                 <  2:2423393/101‑1 (MQ=25)                                             TCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGAGTCGCCGAGGCATCGCCTCGGCGAAATCCC                                                            <  1:4493882/101‑1 (MQ=255)                                             TCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGCCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCC                                                            <  2:3129602/101‑1 (MQ=255)                                               cCCGGCGGCCGGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTT                                                          <  2:4152876/100‑1 (MQ=255)                                                 CGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAG                                                        <  2:564892/101‑1 (MQ=25)                                                    CGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAA                                                     <  2:740959/101‑1 (MQ=25)                                                      GCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAG                                                   <  1:4739205/101‑1 (MQ=25)                                                         CGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACC                                                <  1:4636947/101‑1 (MQ=25)                                                             CGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCC                                            <  2:446753/101‑1 (MQ=25)                                                                   cgACCTGGGCCGAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGAC                                      <  2:1501919/99‑1 (MQ=255)                                                                       CTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGG                                  <  2:2198929/101‑1 (MQ=25)                                                                           GGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCC                              <  2:4305162/101‑1 (MQ=17)                                                                            GCCAAAGACCCCGGGGGTCGGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCG                             <  1:1618085/101‑1 (MQ=2)                                                                                          gggccggGGGGCGGAGCCCACGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTT               <  2:3774579/94‑1 (MQ=0)                                                                                          GGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTT               <  2:1365710/101‑1 (MQ=1)                                                                                               cgGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGA          <  1:4970217/99‑1 (MQ=1)                                                                                                gGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGAT         <  2:2964880/100‑1 (MQ=1)                                                                                                    GCGGACCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACC     <  2:2833715/101‑1 (MQ=1)                                                                                                     CGGAGCCCCCGGCGGGGCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGGCGCCTTCTTCGGGGTCACCC    >  2:2994880/1‑101 (MQ=0)                                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCG   <  1:4553362/101‑1 (MQ=1)                                                                                                      GGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCCTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCG   >  2:2604041/1‑101 (MQ=1)                                                                                                       GAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAAAACGCCCGCGGGCAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCcc  >  2:3319072/1‑99 (MQ=0)                                                                                                     ||||                                                                                                    ATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG.......................................................................................................  >  NC_014034/2330196‑2330295 ........................................................................................................GCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATCACCCGC  >  NC_014034/2330296‑2330394 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG