New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395432 =	148 (0.990)	48 (0.320)	9/132	21.8	0.25	intergenic (+244/‑687)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1397131	143 (0.630)					coding (1013/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

CAAAGCGGCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG..............................................................................................................................  <  NC_014034/1395477‑1395432 ................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGACATGTGCTCGCGCCCCATCACTCAAGACGGCAGTTTCGATCCACGCCCCCGCGGGGGG  <  NC_014034/1397131‑1397040                                               ||||||||||||||||||||||||||||||||||                                                                                             ggtcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCG                                                                         >  2:3158712/10‑101 (MQ=1)  gtcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGG                                                                        <  2:1151090/93‑1 (MQ=1)   tcaagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGG                                                                       <  2:2864131/94‑1 (MQ=1)     aagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGG                                                                     <  2:1816402/96‑1 (MQ=1)     aagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGG                                                                     >  1:3221170/6‑101 (MQ=1)     aagctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGG                                                                     <  2:272432/96‑1 (MQ=1)      agctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGG                                                                    >  1:2797709/5‑101 (MQ=1)      agctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGG                                                                    <  2:359510/97‑1 (MQ=1)       gctGATTTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGA                                                                   <  2:1310785/98‑1 (MQ=1)       gctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGA                                                                   <  1:3568041/98‑1 (MQ=1)       gctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGATTCGATCCACGCCCCCGCGGGGGGg                                                                   >  1:3592749/4‑100 (MQ=1)        ctGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAG                                                                  <  2:523480/99‑1 (MQ=1)         tGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                 >  2:297723/2‑101 (MQ=1)         tGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                 >  2:4013093/2‑101 (MQ=1)         tGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                 <  1:1178523/100‑1 (MQ=1)         tGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                 <  2:1344831/100‑1 (MQ=1)         tGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGC                                                                 >  1:4028589/2‑101 (MQ=1)          GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGCTCCACNCCCCCGCGGGNGGgnnn                                                                >  2:1829794/1‑97 (MQ=0)          GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG                                                                <  2:3226649/101‑1 (MQ=1)          GATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCG                                                                >  1:561494/1‑101 (MQ=1)           ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGGGCGA                                                               >  2:3141720/1‑101 (MQ=1)           ATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                                                               <  1:1050776/101‑1 (MQ=1)            TGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                                                              <  1:2845997/101‑1 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                                                             <  2:528679/101‑1 (MQ=1)             GTTTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                                                             >  1:1490834/1‑101 (MQ=1)             GTTTCGACCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGCCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                                                             <  1:154387/101‑1 (MQ=0)               TTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAt                                                           >  2:179521/1‑100 (MQ=1)               TTCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAt                                                           >  2:4081690/1‑100 (MQ=1)                TCGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtc                                                          <  1:1667870/101‑3 (MQ=1)                 CGATCCACGCCCCGGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGCGGAGCGACGAtcg                                                         <  1:2985795/101‑4 (MQ=0)                 CGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcg                                                         >  1:4019023/1‑98 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcg                                                         >  1:3918276/1‑98 (MQ=1)                 CGATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCCCGGGGGGGGCGACGAtcg                                                         >  1:3117374/1‑98 (MQ=0)                   ATCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgag                                                       <  2:1682245/101‑6 (MQ=1)                    TCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagc                                                      <  2:2621549/101‑7 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagc                                                      >  1:1938211/1‑95 (MQ=0)                    TCCACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagc                                                      <  2:56384/101‑7 (MQ=0)                     cccCGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagcc                                                     <  1:2369543/98‑8 (MQ=0)                      CACGCCCCCGCGGGGGGNGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagccc                                                    <  2:1749389/101‑9 (MQ=0)                      CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagccc                                                    <  2:3743997/101‑9 (MQ=0)                      CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagccc                                                    >  2:3687143/1‑93 (MQ=0)                      CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagccc                                                    >  1:2550843/1‑93 (MQ=0)                      CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagccc                                                    >  1:916614/1‑93 (MQ=0)                      CACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagccc                                                    <  2:1007626/101‑9 (MQ=0)                       cCGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagcccg                                                   <  1:988666/100‑10 (MQ=0)                       ACGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagcccg                                                   >  2:2620542/1‑92 (MQ=0)                        CGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagcccgg                                                  >  1:3916107/1‑91 (MQ=0)                        CGCCCCCGCGGGGGGAGCGACCGGCGGGATCCACGACCGGGCCGCCAGCCCTCATAGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGAtcgagcccgg                                                  >  2:494992/1‑91 (MQ=0)                                                                        gaggtgggGGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGGCATGTGCTCGCGCCCCATCACTCAAGACGGCAGTTTCGATCCACGCCCCCGCGGGGGG  <  2:3737447/93‑1 (MQ=0)                                               ||||||||||||||||||||||||||||||||||                                                                                             CAAAGCGGCGATGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCG..............................................................................................................................  <  NC_014034/1395477‑1395432 ................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGACATGTGCTCGCGCCCCATCACTCAAGACGGCAGTTTCGATCCACGCCCCCGCGGGGGG  <  NC_014034/1397131‑1397040 Base quality scores:  ATCG  < 3 ≤  ATCG  < 16 ≤  ATCG  < 24 ≤  ATCG  < 32 ≤  ATCG  < 39 ≤  ATCG