New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1395899 =	179 (1.120)	54 (0.340)	11/130	16.6	0.23	intergenic (+711/‑220)	RCAP_rcc01306/RCAP_rcc01307	Cas2 family CRISPR‑associated protein/hypothetical protein
	?	NC_014034	= 1396198	182 (0.740)					coding (80/1578 nt)	RCAP_rcc01307	hypothetical protein
Rejected: Position hash score below cutoff.

AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGTCCACTGCCCGACGTAGGCCATGAACGCATCGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...................................................................................  <  NC_014034/1395997‑1395899 ......................................................................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGTGGCGGCGCG  <  NC_014034/1396198‑1396151                                                                                                    |||||||||||||||||||||||||||||||||||                                                 AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGTCCACTGCCCGACGTAGGCCATGAACGCATCGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGg                                                                                   >  1:83273/1‑100 (MQ=1)                                                          gatcatcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGG                          <  2:4341196/91‑1 (MQ=0)                                                           atcatcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGG                         >  2:4330042/10‑101 (MQ=0)                                                            tcatcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                        <  1:4566272/93‑1 (MQ=1)                                                            tcatcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGG                        <  2:1611318/93‑1 (MQ=1)                                                             catcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGA                       >  2:417589/8‑101 (MQ=1)                                                             catcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGA                       >  2:1904474/8‑101 (MQ=1)                                                             catcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGA                       <  2:2479082/94‑1 (MQ=1)                                                               tcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGCGAGC                     <  1:4887783/96‑1 (MQ=1)                                                               tcgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCCGGGGGTTTCGATCCACGCCCCCGCGGGGGGAGC                     >  1:4308045/6‑101 (MQ=2)                                                               tcgatGTTTCGACCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGC                     <  2:4504788/96‑1 (MQ=1)                                                                cgatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCG                    >  2:1633058/5‑101 (MQ=1)                                                                 gatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGGTCCACGCCCCCGCGGGGGGGGCGA                   >  2:2349862/4‑101 (MQ=0)                                                                 gatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                   >  1:3137738/4‑101 (MQ=1)                                                                 gatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                   >  1:2101766/4‑101 (MQ=1)                                                                 gatGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGA                   <  1:1524598/98‑1 (MQ=1)                                                                  attTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                  <  2:1928821/98‑1 (MQ=1)                                                                  atGTTTCGATCCCCGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCCCGGGGGGAGCGAC                  <  1:2483848/99‑1 (MQ=0)                                                                  atGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                  <  1:26221/99‑1 (MQ=1)                                                                  atGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC                  <  1:2201262/99‑1 (MQ=1)                                                                   tGTTTCGATCCACGCCCCCGCGGGGGGAGCGACTCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                 <  1:4298074/100‑1 (MQ=1)                                                                   tGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                 >  2:3097697/2‑101 (MQ=1)                                                                   tGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACG                 <  1:4108821/100‑1 (MQ=1)                                                                    GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGC                <  2:2608704/101‑1 (MQ=1)                                                                    GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGC                >  2:2927946/1‑101 (MQ=1)                                                                    GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGC                >  1:1111566/1‑101 (MQ=1)                                                                     TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCA               >  1:4694603/1‑101 (MQ=1)                                                                     TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCA               >  1:3873980/1‑101 (MQ=1)                                                                     TTTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCCCGGGGGGGGCGACGCg               >  1:2752067/1‑100 (MQ=0)                                                                      TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG              >  2:5020392/1‑101 (MQ=1)                                                                      TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG              <  2:4694280/101‑1 (MQ=1)                                                                      TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG              >  1:2523865/1‑101 (MQ=1)                                                                      TTCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAG              >  2:2016318/1‑101 (MQ=1)                                                                       TCGATCCCCGCCCCCGCGGGGGGAGCGACGCGGTAGCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGC             <  2:2011300/101‑1 (MQ=0)                                                                       TCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGC             <  1:4118330/101‑1 (MQ=1)                                                                       TCGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGC             <  1:2233440/101‑1 (MQ=1)                                                                        CGATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCG            <  1:3940410/101‑1 (MQ=1)                                                                         GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGg           >  2:1007073/1‑100 (MQ=1)                                                                         GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGg           >  1:3172332/1‑100 (MQ=1)                                                                         GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGg           >  2:2527541/1‑100 (MQ=1)                                                                         GATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGg           >  1:2234570/1‑100 (MQ=1)                                                                          ATCCGCCCCCCCGCGGGGGGAGCGACGCGGTTTCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgc          <  1:1896428/101‑3 (MQ=0)                                                                          ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgc          <  1:891788/101‑3 (MQ=1)                                                                          ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgc          <  1:1698323/101‑3 (MQ=1)                                                                          ATCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgc          <  1:3481515/101‑3 (MQ=1)                                                                           TCCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgca         >  1:4013275/1‑98 (MQ=1)                                                                            CCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcac        >  1:2882074/1‑97 (MQ=1)                                                                            CCACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcac        <  1:3463139/101‑5 (MQ=1)                                                                              ACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacca      >  1:293838/1‑95 (MQ=0)                                                                              ACGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcacca      >  1:31130/1‑95 (MQ=0)                                                                               CGCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccag     <  1:4089478/101‑8 (MQ=0)                                                                                GCCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccaga    <  2:4739912/101‑9 (MQ=0)                                                                                 CCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccagaa   <  1:4034998/101‑10 (MQ=0)                                                                                 CCCCCGCGGGGGGAGCGACGCGGTATCGGTGTTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccagaa   >  2:4900408/1‑92 (MQ=0)                                                                                  CCCCGCGGGGGGAGCGACGCGGTATCGGTGNTCGCCGCCGACAGGTTCGGGGTGTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGgcaccagaag  <  1:1504003/101‑11 (MQ=0)                                                                                                    |||||||||||||||||||||||||||||||||||                                                 AGTTTCGATCCACGCCCCCGCGGGGGGAGCGACCAGTCCACTGCCCGACGTAGGCCATGAACGCATCGTTTCGATCCACGCCCCCGCGGGGGGAGCGAC...................................................................................  <  NC_014034/1395997‑1395899 ......................................................................................................................................GTTTCGATCCACGCCCCCGCGGGGGGAGCGACGCAGCGTGGCGGCGCG  <  NC_014034/1396198‑1396151 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 23 ≤  ATCG  < 32 ≤  ATCG  < 39 ≤  ATCG