New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395832 =	171 (1.130)	71 (0.470)	19/128	13.5	0.27	intergenic (+644/‑287)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1397000	221 (0.930)					coding (882/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

TAGGCGGCGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...................................................................................  <  NC_014034/1395874‑1395832 ...............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGCAGGCGGAAGC  <  NC_014034/1397000‑1396954                                            ||||||||||||||||||||||||||||||||||||                                                ctggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGG                           >  2:783978/11‑101 (MQ=0) ctggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGG                           >  1:4579679/11‑101 (MQ=0)  tggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGG                          >  2:1834208/10‑101 (MQ=0)  tggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGG                          >  2:3727209/10‑101 (MQ=0)  tggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGG                          <  1:1695958/92‑1 (MQ=0)   ggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGG                         >  2:1632631/9‑101 (MQ=0)   ggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGG                         <  2:1963277/93‑1 (MQ=0)   ggtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGG                         >  1:2395349/9‑101 (MQ=0)    gtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGANGCCGAGTTTCGATCCACGCCCCCGCGGGGG                        >  1:343683/8‑101 (MQ=0)    gtcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGG                        <  1:1927630/94‑1 (MQ=0)     tcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGG                       <  1:3268973/95‑1 (MQ=0)     tcatcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGG                       >  2:1378354/7‑101 (MQ=0)      catcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                      <  1:752793/96‑1 (MQ=1)      catcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                      >  2:1626684/6‑101 (MQ=1)      catcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                      <  2:720919/96‑1 (MQ=1)      catcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                      >  2:666053/6‑101 (MQ=1)      catcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGA                      <  2:4324036/96‑1 (MQ=1)       atcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                     <  2:2396717/97‑1 (MQ=1)       atcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAG                     <  1:1275756/97‑1 (MQ=1)        tcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                    <  1:2180151/98‑1 (MQ=1)        tcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                    >  2:3391550/4‑101 (MQ=1)        tcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                    <  1:3186402/98‑1 (MQ=1)        tcaAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGC                    >  1:4235447/4‑101 (MQ=1)         caAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCG                   <  2:39766/99‑1 (MQ=1)         caAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCG                   >  2:4342136/3‑101 (MQ=1)         caAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCG                   <  1:3519283/99‑1 (MQ=1)          aAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                  <  1:291247/100‑1 (MQ=1)          aAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                  <  1:3547491/100‑1 (MQ=1)          aAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCAACGCCCCCGCGGGGGGAGCGA                  <  1:4545124/100‑1 (MQ=1)          aAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGAATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                  <  1:4737020/100‑1 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                 >  2:3752927/1‑101 (MQ=1)           AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                 >  1:3054694/1‑101 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                <  1:3727439/101‑1 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                >  1:1385337/1‑101 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                <  1:1548499/101‑1 (MQ=1)            GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACC                <  1:717343/101‑1 (MQ=1)             TTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg               >  1:1380985/1‑100 (MQ=1)             TTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCg               >  1:4429291/1‑100 (MQ=1)               TCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACgccg             >  2:3611578/1‑97 (MQ=1)               TCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCG             <  1:3755318/101‑1 (MQ=1)               TCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCG             >  2:3769493/1‑101 (MQ=1)               TCGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCG             >  1:2937090/1‑101 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGC            >  2:43652/1‑101 (MQ=1)                CGATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGC            >  2:3100275/1‑101 (MQ=1)                 GATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGCGCGACCGCGCA           >  2:3113748/1‑101 (MQ=0)                 GATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCA           >  2:2356953/1‑101 (MQ=1)                 GATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCA           <  2:2543597/101‑1 (MQ=1)                 GATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCA           >  2:3794143/1‑101 (MQ=1)                  ATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAG          <  2:1637025/101‑1 (MQ=1)                  ATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAG          >  2:2240109/1‑101 (MQ=1)                  ATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAG          <  1:1834317/101‑1 (MQ=1)                  ATCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCACCCGCGGGGGGAGCGACCGCGCAG          >  1:1872634/1‑101 (MQ=0)                   TCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGa         >  2:241647/1‑100 (MQ=1)                   TCCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGa         <  1:392571/101‑2 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGac        >  1:1179849/1‑99 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGac        <  1:610194/101‑3 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGac        >  1:983142/1‑99 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGac        >  2:1355497/1‑99 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGac        >  1:2742549/1‑99 (MQ=1)                    CCACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGGTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGac        >  2:4033645/1‑99 (MQ=0)                     CACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGaca       >  1:3573061/1‑98 (MQ=0)                     CACGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGaca       <  2:1886555/101‑4 (MQ=0)                      cCGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaa      <  2:4103109/100‑5 (MQ=0)                       CGCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaa     <  1:2979817/101‑6 (MQ=0)                        GCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaag    >  1:1711065/1‑95 (MQ=0)                        GCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaag    >  1:367655/1‑95 (MQ=0)                        GCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaag    <  1:3787829/101‑7 (MQ=0)                        GCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaag    <  1:1373812/101‑7 (MQ=0)                        GCCCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaag    >  1:1872227/1‑95 (MQ=0)                          CCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaagat  >  1:1841679/1‑93 (MQ=0)                          CCCCGCGGGGGGAGCGACCAGCGCGCAATACGAGGCTGACCGGATCGAGGCCGAGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGCGCAGacaaagat  <  1:815114/101‑9 (MQ=0)                                            ||||||||||||||||||||||||||||||||||||                                                TAGGCGGCGCAGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...................................................................................  <  NC_014034/1395874‑1395832 ...............................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCACGCAGGCGGAAGC  <  NC_014034/1397000‑1396954 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG