New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1478647	176 (0.870)	48 (0.240)	20/190	19.0	0.34	intergenic (+135/+8)	RCAP_rcc01372/RCAP_rcc01373	ABC transporter ATP‑binding protein/RpiR family transcriptional regulator
	?	NC_014034	2600957 =	10 (0.050)					intergenic (+19/‑122)	RCAP_rcc02424/surE	short‑chain dehydrogenase/reductase family oxidoreductase/5'‑nucleotidase SurE
Rejected: Position hash score below cutoff.

TATTTGGAGCAAGATGAAAGCACGATCTGCGGTTTTCATTTATCTTGCTTCAAATATCCCGGGGGGTGAATTGGCCGAGAGGGCAAGAGGGGGCAG.CGCCCCCT....................................................................................................  >  NC_014034/1478544‑1478647 ....................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGACA  >  NC_014034/2600957‑2601056                                                                                                                                                                                                                                                                                  GAATTGGCC.AAAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTT                                     >  2:3792684/1‑101 (MQ=255)                                                                    GAATTGGCC.AAAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTT                                     >  1:675907/1‑101 (MQ=255)                                                                     AATTGGCC.AAAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTG                                    >  1:2278627/1‑101 (MQ=255)                                                                      ATTGGCC.AAAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGC                                   <  1:3792941/101‑1 (MQ=255)                                                                        ttggccaaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCT                                  >  1:2117029/9‑101 (MQ=255)                                                                         tggccaaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTT                                 >  2:857214/8‑101 (MQ=255)                                                                         tggccaaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTT                                 >  2:678568/8‑101 (MQ=255)                                                                           gccaaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGT                               >  1:2677684/6‑101 (MQ=255)                                                                           gccaaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGT                               >  2:327344/6‑101 (MQ=255)                                                                            ccaaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                              >  2:3179258/5‑101 (MQ=255)                                                                             caaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTT                             >  1:4146090/4‑101 (MQ=255)                                                                              aaAGGCCAAGGGGGGGCGG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            <  1:642281/99‑1 (MQ=255)                                                                              aaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            >  2:1042668/3‑101 (MQ=25)                                                                              aaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            >  2:1573790/3‑101 (MQ=25)                                                                              aaAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            >  2:3462183/3‑101 (MQ=25)                                                                              aaAGGCCAAGAGGGGGCAG.CCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            <  1:235378/99‑1 (MQ=255)                                                                               aAGGCCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGG                           >  1:3712576/2‑101 (MQ=25)                                                                                 ggcCAAGGGGGGGCCG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                         <  1:1144687/98‑1 (MQ=2)                                                                                  gcCAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGCTt                        >  2:1401550/3‑100 (MQ=19)                                                                                    CAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                      >  1:3124697/1‑101 (MQ=34)                                                                                    CAAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                      >  1:2004063/1‑101 (MQ=34)                                                                                     AAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTTTTTGGCTGCGG                     >  1:1651495/1‑101 (MQ=18)                                                                                     AAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGCTGCGG                     >  1:3160091/1‑101 (MQ=18)                                                                                     AAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGgcg                     >  2:3334344/1‑98 (MQ=18)                                                                                     AAGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGG                     >  1:507167/1‑101 (MQ=33)                                                                                      AGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGGTGCGGg                    >  1:1082958/1‑100 (MQ=17)                                                                                      AGAGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                    <  2:3088874/101‑1 (MQ=32)                                                                                        AGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTTCTTGTTTTGCTGCGGCGC                  >  2:1583442/1‑101 (MQ=2)                                                                                        AGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTTTTTGGCTGCGGCGC                  >  2:1448081/1‑101 (MQ=11)                                                                                        AGGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                  >  2:4142465/1‑101 (MQ=11)                                                                                         GGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGTGGCGCc                 >  2:3529174/1‑100 (MQ=1)                                                                                         GGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                 <  2:2417415/101‑1 (MQ=1)                                                                                         GGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                 <  2:572915/101‑1 (MQ=1)                                                                                         GGGGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                 >  2:3721080/1‑101 (MQ=1)                                                                                          GGGGCAGCCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                 <  1:1879262/101‑1 (MQ=25)                                                                                           GGGCGG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               <  1:3895997/101‑1 (MQ=1)                                                                                           GGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               >  2:687167/1‑101 (MQ=1)                                                                                           GGGCAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               <  2:4077895/101‑1 (MQ=1)                                                                                           GGGCAG.CGCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               <  1:1306299/101‑1 (MQ=1)                                                                                              CAG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC            >  2:3395620/1‑101 (MQ=1)                                                                                               cggccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC            <  1:3518974/96‑1 (MQ=11)                                                                                               AG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           >  1:1478155/1‑101 (MQ=1)                                                                                               AG.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           >  2:822254/1‑101 (MQ=1)                                                                                                G.CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCGGCGGCGCAGCGGCTt          >  1:3837053/1‑100 (MQ=1)                                                                                                  CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAA         >  1:925394/1‑101 (MQ=1)                                                                                                  CGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAA         >  1:945821/1‑101 (MQ=1)                                                                                                   GCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGGGGCGCAGCGGCTAAT        >  1:1844872/1‑101 (MQ=1)                                                                                                    CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCCGCGGCTAATC       >  2:3382109/1‑101 (MQ=1)                                                                                                                                                                                                               TATTTGGAGCAAGATGAAAGCACGATCTGCGGTTTTCATTTATCTTGCTTCAAATATCCCGGGGGGTGAATTGGCCGAGAGGGCAAGAGGGGGCAG.CGCCCCCT....................................................................................................  >  NC_014034/1478544‑1478647 ....................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGACA  >  NC_014034/2600957‑2601056 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 41 ≤  ATCG