New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2478763	213 (0.920)	65 (0.280)	16/194	26.2	0.37	intergenic (‑224/+33)	RCAP_rcc02304/RCAP_rcc02305	hypothetical protein/heme ABC transporter ATP‑binding/permease
	?	NC_014034	2600955 =	8 (0.030)					intergenic (+17/‑124)	RCAP_rcc02424/surE	short‑chain dehydrogenase/reductase family oxidoreductase/5'‑nucleotidase SurE
Rejected: Position hash score below cutoff.

GATATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCC....................................................................................................  >  NC_014034/2478662‑2478763 ...................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGA  >  NC_014034/2600955‑2601054                                                                                                                                                                                                              TATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCCCCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCC                                                                                                     <  2:1247450/101‑1 (MQ=38)   TATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCC                                                                                                     >  1:2074822/1‑101 (MQ=37)   TATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCC                                                                                                     >  2:3238958/1‑101 (MQ=37)    ATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCT                                                                                                    >  2:2642561/1‑101 (MQ=38)    ATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCT                                                                                                    >  1:3450667/1‑101 (MQ=38)    ATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGGGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCT                                                                                                    >  2:2739956/1‑101 (MQ=38)     TTTGCACCCAGGTGAAAGCAGCGCCCCTGTTTCATTTCCCCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTt                                                                                                   <  2:2048260/101‑2 (MQ=255)     TTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTt                                                                                                   <  2:3220560/101‑2 (MQ=40)     TTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTt                                                                                                   <  2:2651880/101‑2 (MQ=39)       TGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgc                                                                                                 >  1:4070605/1‑98 (MQ=38)       TGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgc                                                                                                 <  1:4127438/101‑4 (MQ=255)        GCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgct                                                                                                <  2:4659012/101‑5 (MQ=255)        GCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgct                                                                                                <  2:2512577/101‑5 (MQ=255)        GCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgct                                                                                                >  2:2299875/1‑97 (MQ=255)        GCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgct                                                                                                >  1:4488630/1‑97 (MQ=255)          ACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCCCTtgcttt                                                                                              <  2:3305600/101‑7 (MQ=255)                                                                          ggccAAAGGCAAGAAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTG                              <  1:3122464/97‑1 (MQ=12)                                                                            ccAAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                            >  2:4245278/3‑101 (MQ=2)                                                                            ccAAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                            >  1:994692/3‑101 (MQ=2)                                                                            ccAAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                            >  2:2419157/3‑101 (MQ=2)                                                                              AAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                          >  2:1141777/1‑101 (MQ=11)                                                                              AAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                          >  1:691114/1‑101 (MQ=11)                                                                              AAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                          >  2:2779339/1‑101 (MQ=11)                                                                              AAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                          >  1:2086094/1‑101 (MQ=11)                                                                              AAAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                          >  2:658358/1‑101 (MQ=11)                                                                               AAGGCCAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGG                         <  2:2297492/101‑1 (MQ=11)                                                                                aggccaagaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGC                        >  2:908266/10‑101 (MQ=14)                                                                                aggccaagaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGC                        >  1:102169/10‑101 (MQ=14)                                                                                 ggccaagaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCg                       >  2:725323/9‑100 (MQ=11)                                                                                 ggccaagaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                       <  1:490912/93‑1 (MQ=11)                                                                                 GGCCAAGGGGGGGCAGCGCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                       <  2:4368986/101‑1 (MQ=0)                                                                                   ccaagaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGC                     >  1:3441205/7‑101 (MQ=11)                                                                                    caagaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                    >  2:3121330/6‑101 (MQ=11)                                                                                    caagGGGGGGCAGCCCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                    <  1:1266211/97‑1 (MQ=2)                                                                                      agaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGCTGCGGC                  >  2:1193394/4‑101 (MQ=1)                                                                                      agaGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                  >  1:4516354/4‑101 (MQ=1)                                                                                       gGGGGGGCAGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCG                 <  1:1211977/100‑1 (MQ=1)                                                                                       gGGGGGGCAGCCCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCG                 <  1:4264293/100‑1 (MQ=0)                                                                                        aGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                >  2:3669882/2‑101 (MQ=1)                                                                                        GGGGGGCGGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                <  2:2125899/101‑1 (MQ=14)                                                                                         GGGGGCGGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCACGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA               <  2:1360401/101‑1 (MQ=17)                                                                                         GGGGGCCGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA               <  2:1997911/101‑1 (MQ=1)                                                                                         GGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCc               >  1:3470437/1‑100 (MQ=1)                                                                                          GGGGCGGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAG              <  1:4511998/101‑1 (MQ=32)                                                                                          GGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGGTGCGGCGCAG              >  2:3581235/1‑101 (MQ=0)                                                                                           gggcgcccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC             <  1:2586551/93‑1 (MQ=2)                                                                                           GGGCCGCCCCCCCTCCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC             <  2:2097712/101‑1 (MQ=0)                                                                                           GGGCAGCGCCCCGTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC             >  1:2531011/1‑101 (MQ=1)                                                                                           GGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC             <  2:4132522/101‑1 (MQ=1)                                                                                           GGGCAGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC             <  1:3477147/101‑1 (MQ=1)                                                                                              cggccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC          <  1:18024/96‑1 (MQ=11)                                                                                              cgGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC          >  2:1928509/3‑101 (MQ=31)                                                                                              CAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC          >  1:68442/1‑101 (MQ=1)                                                                                              CAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC          >  1:3769159/1‑101 (MQ=1)                                                                                               cgccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT         <  1:4646108/97‑1 (MQ=11)                                                                                               ccccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT         <  2:3603484/97‑1 (MQ=11)                                                                                               AGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCCGCGCAGCGGCT         >  1:767549/1‑101 (MQ=1)                                                                                               AGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGGTTGGCTGCGGCGCAGCGGac         >  1:4572857/1‑99 (MQ=1)                                                                                                gccCCCCCCCCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTA        <  1:458279/98‑1 (MQ=2)                                                                                                  cCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAAT      <  1:1603947/100‑1 (MQ=11)                                                                                                  cCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAAT      <  2:779262/100‑1 (MQ=11)                                                                                                  GCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCCGCGGGTAAT      >  1:4320237/1‑101 (MQ=0)                                                                                                   CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTTCTTGTTTGGCTGCGGCGCAGCGGCTAATC     >  1:883967/1‑101 (MQ=1)                                                                                                   CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC     >  2:4292472/1‑101 (MQ=1)                                                                                                   CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC     <  1:3121574/101‑1 (MQ=1)                                                                                                                                                                                                            GATATTTGCACCAAGGTGAAAGCAGCGCCCCGGTTTCATTTCACCTTGGCCGAAATATCCCGGGGGGTGAATGGCCGAAAGGCCAGAGGGGGGCAGCGCCCC....................................................................................................  >  NC_014034/2478662‑2478763 ...................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGA  >  NC_014034/2600955‑2601054 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 27 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG