New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1729639 =	108 (0.520)	43 (0.210)	6/182	30.2	0.40	intergenic (+13/+140)	RCAP_rcc01597/tpiA	AsnC/Lrp family transcriptional regulator/triose‑phosphate isomerase
	?	NC_014034	2600961 =	23 (0.100)					intergenic (+23/‑118)	RCAP_rcc02424/surE	short‑chain dehydrogenase/reductase family oxidoreductase/5'‑nucleotidase SurE
Rejected: Position hash score below cutoff.

GATATTTGGAGCAAGATGAAATCAGCTCCGGTTGTTTTTCATCTTGCTCCAAATATCCCGGGGGGTGAATGGCCGCGAGGCCA.GAGGGGGCAGCGCCCCCCTGCCC....................................................................................................  <  NC_014034/1729744‑1729639 ..................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGACAGAAA  >  NC_014034/2600961‑2601060                                                                                                                                                                                                                                                                                              ggccaA.GAGGGGGCAGC.CCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                             <  1:1328676/96‑1 (MQ=2)                                                                              gccaaA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                             <  2:2775149/96‑1 (MQ=1)                                                                               gccaA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTG                            >  2:2308210/5‑101 (MQ=11)                                                                               GGCCAGGAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCT                             <  1:3902797/101‑1 (MQ=0)                                                                                ccaA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGC                           <  1:1680272/98‑1 (MQ=11)                                                                                ccaA.GAGGGGGCAGC.CCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGC                           <  2:184474/98‑1 (MQ=11)                                                                                  aA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGGTGCcg                         >  1:3330166/2‑99 (MQ=1)                                                                                  aA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTTCGG                         >  2:1539855/2‑101 (MQ=1)                                                                                  aA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGG                         <  2:2731751/100‑1 (MQ=1)                                                                                  aA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGG                         >  1:411133/2‑101 (MQ=1)                                                                                  aA.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGG                         >  2:1036040/2‑101 (MQ=1)                                                                                   A.GAGGGGGCGGC.CCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                        <  1:4276275/101‑1 (MQ=17)                                                                                   A.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                        >  1:2475465/1‑101 (MQ=1)                                                                                   A.GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGC                        >  2:2159973/1‑101 (MQ=1)                                                                                     ggGGGGGCCGC.CCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCG                       <  1:947711/99‑1 (MQ=0)                                                                                     GAGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCG                       >  2:2213723/1‑101 (MQ=1)                                                                                      gGGGGACAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                      <  2:2784065/100‑1 (MQ=1)                                                                                      AGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTTGCTGCGGCGC                      >  2:1935756/1‑101 (MQ=1)                                                                                      AGGGGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGC                      >  2:3345049/1‑101 (MQ=1)                                                                                       GGGGGCCGC.CCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                     <  2:3902749/101‑1 (MQ=0)                                                                                       GGGGGCCGC.CCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                     <  2:1373577/101‑1 (MQ=0)                                                                                        ggcccccccCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCA                     <  2:3475794/92‑1 (MQ=2)                                                                                         GGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGGGCAGC                   >  2:3519532/1‑101 (MQ=1)                                                                                         GGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC                   <  1:2008294/101‑1 (MQ=1)                                                                                         GGGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC                   >  1:2444409/1‑101 (MQ=1)                                                                                          gcgcggcCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC                   <  2:3422221/94‑1 (MQ=14)                                                                                          GGCCGCCCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGC                   <  1:2221309/101‑1 (MQ=9)                                                                                          GGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGGGGGGCAGCG                  >  2:1875840/1‑101 (MQ=0)                                                                                          GGCAGCG.CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCG                  >  1:1727956/1‑101 (MQ=1)                                                                                           gccgccCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCG                  <  2:2691244/95‑1 (MQ=2)                                                                                             gcccCCCCCCCCCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGC                <  2:3924212/97‑1 (MQ=2)                                                                                              gccCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACCCCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT               <  1:3488826/98‑1 (MQ=2)                                                                                              cgcCCCCCGGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT               <  1:2303066/98‑1 (MQ=2)                                                                                              agcgCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT               >  2:1564365/5‑101 (MQ=1)                                                                                              agcgCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCT               >  2:1376722/5‑101 (MQ=1)                                                                                               gcCCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTA              <  1:2707709/99‑1 (MQ=11)                                                                                                cgCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAA             <  1:638728/99‑1 (MQ=1)                                                                                                cgCCCCCGGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAA             <  1:4318304/99‑1 (MQ=1)                                                                                                 gCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGGGGCGCAGCGGCTAAT            >  2:1110383/2‑101 (MQ=1)                                                                                                 gCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAAT            >  1:4130125/2‑101 (MQ=1)                                                                                                 gCCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAAT            >  2:4209195/2‑101 (MQ=1)                                                                                                  CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC           >  1:1446566/1‑101 (MQ=1)                                                                                                  CCCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATC           <  2:732125/101‑1 (MQ=1)                                                                                                                                                                                                                 GATATTTGGAGCAAGATGAAATCAGCTCCGGTTGTTTTTCATCTTGCTCCAAATATCCCGGGGGGTGAATGGCCGCGAGGCCA.GAGGGGGCAGCGCCCCCCTGCCC....................................................................................................  <  NC_014034/1729744‑1729639 ..................................................................................................CCCCTGCCCCGCCGGATCCGGGGCGGACCGGGTCCGCAAGGGCACACCTGCGCGCCAAGTGCAGCGGCTTGCTTGTTTGGCTGCGGCGCAGCGGCTAATCAGACAGAAA  >  NC_014034/2600961‑2601060 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG