New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1397632 =	150 (0.910)	54 (0.330)	8/134	19.0	0.26	coding (1514/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	= 1397934	157 (0.640)					intergenic (+238/+1660)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

ACCGGAACTCTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC...........................................................................  <  NC_014034/1397678‑1397632 ................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGTTGGTGAG  <  NC_014034/1397934‑1397893                                                |||||||||||||||||||||||||||||||||                                           agagccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCG                       >  2:58839/11‑101 (MQ=0) agagccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCG                       <  2:422088/91‑1 (MQ=0) agagccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCG                       <  1:2008226/91‑1 (MQ=0)  gacccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGG                      <  1:1126573/92‑1 (MQ=0)   agccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGG                     >  2:2088486/9‑101 (MQ=0)   agccccgCTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGG                     <  2:1377810/94‑1 (MQ=0)    gtcccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGG                    <  2:5026937/94‑1 (MQ=0)    gccccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGG                    >  2:3127467/8‑101 (MQ=0)      cccggTGTATTTTCGACCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                  <  2:1955271/96‑1 (MQ=0)      cccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                  >  2:4469526/6‑101 (MQ=1)      cccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                  <  2:2969986/96‑1 (MQ=1)      cccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                  <  2:3062559/96‑1 (MQ=1)      cccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:1484403/96‑1 (MQ=1)      cccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGCCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGG                  <  1:4245610/96‑1 (MQ=0)       ccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGA                 <  1:322135/97‑1 (MQ=1)       ccggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGA                 <  1:3457895/97‑1 (MQ=1)         ggTGTGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGTCCAGCGCATAGTCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  1:1638978/99‑1 (MQ=0)         ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC               >  1:2155961/3‑101 (MQ=1)         ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  2:4741744/99‑1 (MQ=1)         ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC               <  1:3393917/99‑1 (MQ=1)         ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC               >  1:44290/3‑101 (MQ=1)         ggTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGC               >  2:1447142/3‑101 (MQ=1)          gttTAGTTTCGATCCACGCACCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCG              <  2:4009691/98‑1 (MQ=0)           TGTAGTTTCGATCCACGCCCCCGCGGTGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             <  1:4238981/101‑1 (MQ=1)           TGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA             >  1:1936375/1‑101 (MQ=1)            GTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGGGAC            >  1:3648862/1‑101 (MQ=1)            GTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            <  1:3824646/101‑1 (MQ=1)            GTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC            <  1:1700554/101‑1 (MQ=1)             TAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACc           <  2:4049441/101‑2 (MQ=1)             TAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACc           <  1:4124903/101‑2 (MQ=1)             TAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACc           >  1:2707310/1‑100 (MQ=1)             TAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACc           >  1:2001456/1‑100 (MQ=1)              AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcg          >  2:4723137/1‑99 (MQ=1)              AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcg          <  2:3058242/101‑3 (MQ=1)               GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcgg         >  2:665092/1‑98 (MQ=1)                TTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggg        >  1:903933/1‑97 (MQ=1)                 TTCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcgggg       >  2:4591282/1‑96 (MQ=1)                  TCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggc      <  2:3462617/101‑7 (MQ=1)                  TCGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggc      <  2:3991955/101‑7 (MQ=1)                   CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGGGCGACnngngcn     >  1:2165525/1‑94 (MQ=0)                   CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcc     >  2:3027319/1‑94 (MQ=1)                   CGATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcc     <  1:2031600/101‑8 (MQ=1)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGcccggggcca    >  1:29207/1‑91 (MQ=0)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcca    <  2:992222/101‑9 (MQ=0)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcca    >  1:629030/1‑93 (MQ=0)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcca    >  1:3217404/1‑93 (MQ=0)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcca    <  1:1945509/101‑9 (MQ=0)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcca    <  1:1501469/101‑9 (MQ=0)                    GATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggcca    >  1:1256487/1‑93 (MQ=0)                     ATCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggccaa   <  1:4088813/101‑10 (MQ=0)                      TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggccaat  <  2:3242318/101‑11 (MQ=0)                      TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggccaat  >  2:1157589/1‑91 (MQ=0)                      TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggccaat  <  1:15020/101‑11 (MQ=0)                      TCCACGCCCCCGCGGGGGGAGCGACCACGTCCAGCGCATAGGCCGTTGCCGGGTCAGTTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACcggggccaat  >  2:743935/1‑91 (MQ=0)                                                |||||||||||||||||||||||||||||||||                                           ACCGGAACTCTGTAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC...........................................................................  <  NC_014034/1397678‑1397632 ................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACTGTTGGTGAG  <  NC_014034/1397934‑1397893 Base quality scores:  ATCG  < 3 ≤  ATCG  < 19 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG