New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397000	188 (1.300)	50 (0.350)	10/128	20.5	0.22	coding (882/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1398037 =	176 (0.780)					intergenic (+341/+1557)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GCTTCCGCCTGCGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC......................................................................................................................................  >  NC_014034/1396954‑1397000 ...................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGTAAGCGGTGCATCGGCCCGATAAACCCCGATTTTCGGCCCCTGAGGGGAAAGATTCTTGGCACAATTCCG  >  NC_014034/1398037‑1398134                                                ||||||||||||||||||||||||||||||||||||                                                                                                   atctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGG                                                                                  >  2:3413524/9‑101 (MQ=0)  tctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGG                                                                                 >  2:2486996/8‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                                <  1:1274619/95‑1 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                                >  1:487021/7‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                                >  1:2507107/7‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                                >  1:2818788/7‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                                <  2:2565099/95‑1 (MQ=0)     ttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGT                                                                              >  2:3583998/5‑101 (MQ=0)     ttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGT                                                                              <  2:2603677/97‑1 (MQ=0)      tgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTG                                                                             >  1:1586227/4‑101 (MQ=0)      tgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTG                                                                             <  2:3121347/98‑1 (MQ=0)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                            <  2:4401344/99‑1 (MQ=1)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                            <  2:3899311/99‑1 (MQ=1)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                            <  1:616963/99‑1 (MQ=1)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                            <  1:599804/99‑1 (MQ=1)        tCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGA                                                                           <  2:1962375/100‑1 (MQ=1)        tCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGA                                                                           >  2:1318794/2‑101 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                          <  2:1048408/101‑1 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                          >  2:2262128/1‑101 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                          >  2:2291377/1‑101 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                          <  2:2782328/101‑1 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                          >  2:3510725/1‑101 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                          >  1:1206894/1‑101 (MQ=1)          TGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATC                                                                         <  2:2228383/101‑1 (MQ=1)          TGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATC                                                                         >  2:1490729/1‑101 (MQ=1)          TGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCCTGGATC                                                                         >  1:727353/1‑101 (MQ=0)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                        <  2:2559064/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                        <  2:1045072/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                        <  1:1231635/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                        <  1:447186/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                        >  1:3978592/1‑101 (MQ=1)           GCGCGGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                        <  1:3512558/101‑1 (MQ=0)             gcGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGaa                                                                      >  2:543366/3‑99 (MQ=1)             gcGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGaa                                                                      >  1:2621254/3‑99 (MQ=1)              cGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                                                                     >  2:979091/2‑101 (MQ=1)               GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAc                                                                    >  2:2797503/1‑100 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAct                                                                   <  2:1389882/101‑3 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAct                                                                   >  1:1662818/1‑99 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAct                                                                   >  2:3186089/1‑99 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAct                                                                   <  2:2601028/101‑3 (MQ=1)                GTCGCCCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAct                                                                   <  1:4195105/101‑3 (MQ=1)                 TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActt                                                                  >  1:332353/1‑98 (MQ=1)                 TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActt                                                                  >  2:484484/1‑98 (MQ=1)                 TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActt                                                                  <  1:4045844/101‑4 (MQ=1)                  CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActtg                                                                 <  1:1418259/101‑5 (MQ=1)                   cCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActtga                                                                <  1:48787/100‑6 (MQ=1)                   GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActtga                                                                >  1:4282289/1‑96 (MQ=1)                    CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActtgat                                                               <  1:2511230/101‑7 (MQ=1)                     TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActtgatg                                                              >  1:2976215/1‑94 (MQ=0)                     TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAActtgatg                                                              >  1:2389038/1‑94 (MQ=0)                                                                                 caGGTCGCTCCCCCCGCGGGGGCGTGGATCGTAAGCGGTGCATCGGCCCGATCAACACCGATTTTCGGCCCCTGAGGGGAAAGATTCTTGGCACAATTCCG  >  1:2553753/3‑101 (MQ=0)                                                ||||||||||||||||||||||||||||||||||||                                                                                                   GCTTCCGCCTGCGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC......................................................................................................................................  >  NC_014034/1396954‑1397000 ...................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGTAAGCGGTGCATCGGCCCGATAAACCCCGATTTTCGGCCCCTGAGGGGAAAGATTCTTGGCACAATTCCG  >  NC_014034/1398037‑1398134 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG