New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2330295	25 (0.110)	29 (0.130)	9/192	30.9	0.54	intergenic (+270/+42)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2330296 =	25 (0.110)					intergenic (+271/+41)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

TGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG.................................................................................................  >  NC_014034/2330199‑2330295 .....................................................................................................GCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATC  >  NC_014034/2330296‑2330388                                                                                                  ||||                                                                                              TGCGCCAAGAAAANGCNGGGGCGCNCNNNNNGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGA                                                                                               <  1:590716/101‑1 (MQ=0)     CCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCC                                                                                           >  1:2137467/1‑101 (MQ=1)      CAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCC                                                                                          >  2:3976145/1‑101 (MQ=1)       AAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGAGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCC                                                                                         <  1:4136423/101‑1 (MQ=1)        AGAAAAAGCCGGGGGGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                        <  1:2731295/101‑1 (MQ=1)        AGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                        <  1:2426598/101‑1 (MQ=1)        AGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                        <  1:2486964/101‑1 (MQ=1)        AGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCG                                                                                        <  1:418368/101‑1 (MQ=1)          AAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGC                                                                                      >  1:3900184/1‑101 (MQ=31)           AAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCG                                                                                     >  1:1905623/1‑101 (MQ=32)           AAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCG                                                                                     >  2:2909406/1‑101 (MQ=32)           AAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCG                                                                                     >  1:3300333/1‑101 (MQ=32)           AAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCG                                                                                     >  2:630265/1‑101 (MQ=32)            AAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGG                                                                                    >  2:1757145/1‑101 (MQ=32)            AAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGACCCCGGCGG                                                                                    >  2:1589691/1‑101 (MQ=17)             AAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGG                                                                                   >  2:3612832/1‑101 (MQ=32)                CCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCG                                                                                >  2:3933691/1‑101 (MQ=17)                           ATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGCGCCGAGGCcacc                                                                     >  2:2723659/1‑97 (MQ=255)                                                      CGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACC                                          <  1:4092047/101‑1 (MQ=255)                                                        GGCGGCTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGC                                        <  2:2971730/101‑1 (MQ=255)                                                           gtCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCG                                     <  2:4542101/99‑1 (MQ=255)                                                              TTTCACCTGGGGCCAAAGATCCCGGGGGTCGGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGG                                  <  1:3074994/101‑1 (MQ=255)                                                                    CTGGGGCCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGG                            <  2:3498500/101‑1 (MQ=37)                                                                          CCAAAGATCCGGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGA                      <  2:2870567/101‑1 (MQ=2)                                                                          CCAAAGATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGA                      <  2:651872/101‑1 (MQ=11)                                                                            AAAGACCCCGGGGGCCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAG                    <  1:1357193/101‑1 (MQ=0)                                                                              AGATCCCGGGGGTCCGGGGGCGGTGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGT                  <  1:4255922/101‑1 (MQ=11)                                                                                  CCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCC              <  2:2229482/101‑1 (MQ=11)                                                                                         ggccgGGGGCGGGCCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCG       <  2:1616190/96‑1 (MQ=0)                                                                                              GGGGCGGACCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATC  <  2:2137317/101‑1 (MQ=1)                                                                                                  ||||                                                                                              TGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGGG.................................................................................................  >  NC_014034/2330199‑2330295 .....................................................................................................GCCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGATC  >  NC_014034/2330296‑2330388 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG