New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1478647	238 (1.020)	73 (0.310)	17/190	18.6	0.37	intergenic (+135/+8)	RCAP_rcc01372/RCAP_rcc01373	ABC transporter ATP‑binding protein/RpiR family transcriptional regulator
	?	NC_014034	2600957 =	10 (0.040)					intergenic (+19/‑122)	RCAP_rcc02424/surE	short‑chain dehydrogenase/reductase family oxidoreductase/5'‑nucleotidase SurE
Rejected: Position hash score below cutoff.

TATTTGGAGCAAGATGAAAGCACGATCTGCGGTTTTCATTTATCTTGCTTCAAATATCCCGGGGGGTGAATTGGCCGAGAGGGC.AAGAGGGGGCAGCGCCCCCT....................................................................................................  >  NC_014034/1478544‑1478647 ....................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGACA  >  NC_014034/2600957‑2601056                                                                                                                                                                                                                                                                          CGGGGGGTGAATTGGCC.AAAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGC                                             <  2:64319/101‑1 (MQ=39)                                                                 GGTGAATTGGCCAA.AGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGG                                        >  2:1221484/1‑101 (MQ=40)                                                                    GAATTGGCC.AAAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTT                                     <  1:3228554/101‑1 (MQ=40)                                                                      ATTGGCC.AAAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGC                                   >  1:3439669/1‑101 (MQ=40)                                                                      ATTGGCC.AAAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGC                                   >  1:4072620/1‑101 (MQ=40)                                                                      ATTGGCC.AAAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGC                                   >  2:3555712/1‑101 (MQ=40)                                                                      ATTGGCC.AAAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGC                                   >  2:4408290/1‑101 (MQ=40)                                                                        ttggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCT                                  >  1:3268561/9‑101 (MQ=40)                                                                        ttggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCT                                  >  1:3029717/9‑101 (MQ=40)                                                                        ttggcaaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCT                                  <  2:134499/93‑1 (MQ=38)                                                                         tggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTT                                 >  2:2279215/8‑101 (MQ=40)                                                                         tggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTT                                 >  1:2624436/8‑101 (MQ=40)                                                                         tggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTT                                 >  2:2411763/8‑101 (MQ=40)                                                                         tggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTT                                 >  2:364111/8‑101 (MQ=40)                                                                          ggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTG                                >  1:2006728/7‑101 (MQ=39)                                                                          ggccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTG                                >  1:1162673/7‑101 (MQ=39)                                                                           gccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGT                               >  2:1948031/6‑101 (MQ=38)                                                                            gccaaaggcaAAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGT                               <  2:750694/91‑1 (MQ=21)                                                                            ccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTTTT                              >  2:2995876/5‑101 (MQ=37)                                                                            ccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                              >  1:4384904/5‑101 (MQ=37)                                                                            ccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                              <  2:1954699/97‑1 (MQ=37)                                                                            ccaaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTT                              >  2:4769652/5‑101 (MQ=37)                                                                             caaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTT                             >  2:1961204/4‑101 (MQ=35)                                                                             caaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTT                             >  1:3001243/4‑101 (MQ=35)                                                                              caAGGGCAAAGAGGGGGCGGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTT                             <  1:1825383/99‑1 (MQ=21)                                                                              aaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            >  1:4685308/3‑101 (MQ=34)                                                                              aaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            >  1:639291/3‑101 (MQ=34)                                                                              aaAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTG                            <  1:1470427/99‑1 (MQ=34)                                                                               aAGGCC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTTTTTGG                           >  2:2969179/2‑101 (MQ=18)                                                                                 ggcC.AAGGGGGGGCCGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                         <  1:4698104/98‑1 (MQ=9)                                                                                 ggcC.AAGAGGGGGCGGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                         <  2:4989177/98‑1 (MQ=0)                                                                                 ggcC.AAGAGGGGGCAGCGCCCGCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                         >  1:2871104/4‑101 (MQ=17)                                                                                  gcC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTTTTTGGCTG                        >  2:573103/3‑101 (MQ=14)                                                                                  gcC.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTG                        >  1:1617845/3‑101 (MQ=31)                                                                                  gcC.AAGAGGGGGCAGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTG                        <  2:829121/99‑1 (MQ=14)                                                                                    C.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTTTTTGGCTGCG                      >  1:1141297/1‑101 (MQ=1)                                                                                    C.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                      >  1:723345/1‑101 (MQ=1)                                                                                    C.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                      >  1:2755523/1‑101 (MQ=1)                                                                                    C.AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCG                      >  1:3757949/1‑101 (MQ=1)                                                                                      AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGGTGCGG                     >  1:4236446/1‑101 (MQ=0)                                                                                      AAGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGG                     >  2:376119/1‑101 (MQ=1)                                                                                       aggGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                    <  2:1411508/98‑1 (MQ=1)                                                                                       aggGGGGGCACCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                    <  2:3651304/98‑1 (MQ=0)                                                                                       AGAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGG.TGCGGgg                   >  2:4242424/1‑99 (MQ=0)                                                                                        GAGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGgg                   >  1:2970212/1‑99 (MQ=1)                                                                                         gGGGGGCGCCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                  <  1:1873920/100‑1 (MQ=14)                                                                                         AGGGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCCGCGGCGC                  >  1:4617976/1‑101 (MQ=1)                                                                                         AGGGGCCGGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                  <  2:585603/101‑1 (MQ=17)                                                                                           GGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGGGCcg                >  1:731060/1‑99 (MQ=1)                                                                                           GGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGGGCAG                >  1:2014840/1‑101 (MQ=1)                                                                                           GGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAG                >  1:4677568/1‑101 (MQ=1)                                                                                           GGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAG                >  2:579613/1‑101 (MQ=1)                                                                                           GGGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAG                <  2:2624251/101‑1 (MQ=1)                                                                                            ggcCAGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               <  1:3143250/98‑1 (MQ=0)                                                                                            GGGCCGCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               <  2:4785989/101‑1 (MQ=0)                                                                                            GGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               <  2:3268309/101‑1 (MQ=1)                                                                                            GGGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC               >  2:554659/1‑101 (MQ=1)                                                                                             gacgGCGCCCCCTGCCCCGCCGGAGCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCCGCG              <  2:4999188/97‑1 (MQ=9)                                                                                             GGCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCG              >  1:1833766/1‑101 (MQ=1)                                                                                              GCAGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGGGCAGCGG             >  2:1839293/1‑101 (MQ=1)                                                                                               ccGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC            <  1:359671/99‑1 (MQ=1)                                                                                                ggccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           <  1:4597049/97‑1 (MQ=1)                                                                                                cgccCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           <  2:4029375/97‑1 (MQ=2)                                                                                                cgccCCCCCCGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           <  2:4597380/97‑1 (MQ=2)                                                                                                ccccCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           <  1:3797566/97‑1 (MQ=11)                                                                                                AGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           >  1:3824307/1‑101 (MQ=1)                                                                                                AGCGCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT           >  2:2141541/1‑101 (MQ=1)                                                                                                   GCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGATGCAGCGCAGCGGCTAAT        >  2:3363573/1‑101 (MQ=0)                                                                                                   GCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAAT        <  2:2077595/101‑1 (MQ=1)                                                                                                    CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTTCTTGTTTGGCTGCGGCGCGGCGGCTAATC       >  2:4140367/1‑101 (MQ=0)                                                                                                    CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC       <  2:4109658/101‑1 (MQ=1)                                                                                                    CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC       <  1:1221601/101‑1 (MQ=1)                                                                                                    CCCCCGCCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC       <  1:3585640/101‑1 (MQ=0)                                                                                                                                                                                                               TATTTGGAGCAAGATGAAAGCACGATCTGCGGTTTTCATTTATCTTGCTTCAAATATCCCGGGGGGTGAATTGGCCGAGAGGGC.AAGAGGGGGCAGCGCCCCCT....................................................................................................  >  NC_014034/1478544‑1478647 ....................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGACA  >  NC_014034/2600957‑2601056 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 30 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG