New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1396903 =	170 (1.140)	51 (0.340)	6/132	24.4	0.24	coding (785/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	= 1397936	150 (0.660)					intergenic (+240/+1658)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GGCCGCGCAGGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...............................................................................  <  NC_014034/1396947‑1396903 ...............................................................................GAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGTTGGTGAGA  <  NC_014034/1397936‑1397892                                              ||||||||||||||||||||||||||||||||||                                              tgcgGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGC                         <  1:240461/97‑1 (MQ=0) tgcgGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGC                         >  1:2021274/5‑101 (MQ=0)   cgGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGTTCCACGCCCCCGCGG                       >  1:3703268/3‑101 (MQ=0)   cgGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGG                       <  2:2875739/99‑1 (MQ=0)    gGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGG                      >  2:396788/2‑101 (MQ=0)    gGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGG                      >  2:3716852/2‑101 (MQ=0)    gGCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGG                      >  2:2623561/2‑101 (MQ=0)    gGCGCCGGGTGTTTCGATCCACGCACCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGG                      >  1:4415426/2‑101 (MQ=0)     GCGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGG                     <  1:3143641/101‑1 (MQ=0)      CGCCGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGG                    <  1:608148/101‑1 (MQ=11)       gccgggTGTTTCTATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGG                   >  1:802326/7‑101 (MQ=2)        ccgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGc                  >  1:2852383/6‑100 (MQ=11)        ccgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGc                  >  1:3900300/6‑100 (MQ=11)        ccgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                  <  2:3439305/96‑1 (MQ=11)        ccgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                  <  2:916052/96‑1 (MQ=11)         cgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                 >  1:2566513/5‑101 (MQ=11)         cgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                 >  2:1755247/5‑101 (MQ=11)         cgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                 <  1:3061356/97‑1 (MQ=11)         cgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                 <  1:1755366/97‑1 (MQ=11)         cgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                 >  2:642519/5‑101 (MQ=11)         cgggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                 >  1:1241203/5‑101 (MQ=11)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCNAGTTTCGATCCACGCCCCCGCGGGGGGAGC                >  1:2007056/4‑101 (MQ=14)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGGGC                >  1:2289510/4‑101 (MQ=14)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                >  2:320897/4‑101 (MQ=14)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                <  2:1468537/98‑1 (MQ=14)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                >  1:1122108/4‑101 (MQ=14)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                >  1:143861/4‑101 (MQ=14)          gggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGCGAGC                <  2:3764467/98‑1 (MQ=14)           ggTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               <  2:1160083/99‑1 (MQ=31)           ggTGTTTCGAGCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCG               <  2:2742486/99‑1 (MQ=14)            gTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGA              >  2:1783854/2‑101 (MQ=11)             TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC             >  1:3843245/1‑101 (MQ=1)             TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC             <  1:1665150/101‑1 (MQ=1)             TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC             >  2:3055567/1‑101 (MQ=1)              GTTTCGATCCACGCCCCCGCGGGGGGAGCGCCCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACT            <  1:1783973/101‑1 (MQ=1)              GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACT            <  1:579377/101‑1 (MQ=1)                TTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGa          >  2:2010199/1‑100 (MQ=1)                TTCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGa          >  1:224193/1‑100 (MQ=1)                 TCGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaa         <  1:2736164/101‑3 (MQ=1)                  CGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACTGaat        <  1:2010328/101‑4 (MQ=1)                  CGATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaat        <  2:173601/101‑4 (MQ=1)                   GATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatc       >  1:4283753/1‑97 (MQ=1)                    ATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTcaatct      >  2:25814/1‑95 (MQ=1)                    ATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatct      >  2:488347/1‑96 (MQ=1)                    ATCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatct      <  1:521557/101‑6 (MQ=1)                     TCCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatctt     >  1:2062223/1‑95 (MQ=1)                      CCACGCCCCCGCGGGGGGAGCGACCACCGTCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatcttg    <  2:1136513/101‑8 (MQ=1)                      CCACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatcttg    >  2:856392/1‑94 (MQ=1)                       CACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatcttga   >  2:1696781/1‑93 (MQ=1)                       CACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatcttga   <  1:2844909/101‑9 (MQ=1)                        ACGCCCCCGCGGGGGGAGCGACCACCGGCCTTACCCAGATCGGCGATGTCCTTGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGaatcttgac  <  2:3479897/101‑10 (MQ=1)                                              ||||||||||||||||||||||||||||||||||                                              GGCCGCGCAGGCTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...............................................................................  <  NC_014034/1396947‑1396903 ...............................................................................GAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGTTGGTGAGA  <  NC_014034/1397936‑1397892 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG