New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1397000	188 (1.300)	60 (0.410)	14/128	17.8	0.39	coding (882/1578 nt)	RCAP_rcc01307	hypothetical protein
	?	NC_014034	1397766 =	0 (0.000)					intergenic (+70/+1828)	RCAP_rcc01307/RCAP_rcc01309	hypothetical protein/IS66 family transposase
Rejected: Position hash score below cutoff.

GCTTCCGCCTGCGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC................................................................................................................................  >  NC_014034/1396954‑1397000 ...................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGT  >  NC_014034/1397766‑1397857                                                ||||||||||||||||||||||||||||||||||||                                                                                             atctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGG                                                                            >  2:3413524/9‑101 (MQ=0)  tctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGG                                                                           >  2:2486996/8‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                          >  1:487021/7‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                          >  1:2818788/7‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                          <  2:2565099/95‑1 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                          >  1:2507107/7‑101 (MQ=0)   ctttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGC                                                                          <  1:1274619/95‑1 (MQ=0)     ttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGT                                                                        >  2:3583998/5‑101 (MQ=0)     ttgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGT                                                                        <  2:2603677/97‑1 (MQ=0)      tgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTG                                                                       <  2:3121347/98‑1 (MQ=0)      tgtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTG                                                                       >  1:1586227/4‑101 (MQ=0)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                      <  1:599804/99‑1 (MQ=1)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                      <  2:3899311/99‑1 (MQ=1)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                      <  2:4401344/99‑1 (MQ=1)       gtCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGG                                                                      <  1:616963/99‑1 (MQ=1)        tCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGA                                                                     >  2:1318794/2‑101 (MQ=1)        tCTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGA                                                                     <  2:1962375/100‑1 (MQ=1)         CTGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGAT                                                                    >  1:1206894/1‑101 (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)          TGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATC                                                                   >  2:1490729/1‑101 (MQ=1)          TGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATC                                                                   <  2:2228383/101‑1 (MQ=1)          TGCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCCTGGATC                                                                   >  1:727353/1‑101 (MQ=0)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                  <  2:2559064/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                  <  1:447186/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                  <  1:1231635/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                  <  2:1045072/101‑1 (MQ=1)           GCGCGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                  >  1:3978592/1‑101 (MQ=1)           GCGCGGTCGCCCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCG                                                                  <  1:3512558/101‑1 (MQ=0)             gcGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                                                                >  2:543366/3‑101 (MQ=1)             gcGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAA                                                                >  1:2621254/3‑101 (MQ=1)              cGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAA                                                               >  2:979091/2‑101 (MQ=1)               GGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC                                                              >  2:2797503/1‑101 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt                                                             >  1:1662818/1‑100 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt                                                             >  2:3186089/1‑100 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt                                                             <  2:1389882/101‑2 (MQ=1)                GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt                                                             <  2:2601028/101‑2 (MQ=1)                GTCGCCCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACt                                                             <  1:4195105/101‑2 (MQ=1)                 TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACtt                                                            <  1:4045844/101‑3 (MQ=1)                 TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACtt                                                            >  1:332353/1‑99 (MQ=1)                 TCGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACtt                                                            >  2:484484/1‑99 (MQ=1)                  CGCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttg                                                           <  1:1418259/101‑4 (MQ=1)                   cCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttga                                                          <  1:48787/100‑5 (MQ=1)                   GCTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttga                                                          >  1:4282289/1‑97 (MQ=1)                    CTCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgat                                                         <  1:2511230/101‑6 (MQ=1)                     TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCCGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatg                                                        >  1:2160933/1‑95 (MQ=0)                     TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatg                                                        >  1:2976215/1‑95 (MQ=0)                     TCCCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatg                                                        >  1:2389038/1‑95 (MQ=0)                       CCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgac                                                      >  1:4081950/1‑93 (MQ=0)                       CCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgac                                                      <  2:3869892/101‑9 (MQ=0)                       CCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgac                                                      <  2:116273/101‑9 (MQ=0)                       CCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgac                                                      >  1:698258/1‑93 (MQ=0)                       CCCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGCATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACctgatgac                                                      >  2:1939490/1‑93 (MQ=0)                        CCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgacc                                                     <  1:3584246/101‑10 (MQ=0)                        CCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgacc                                                     <  1:1841803/101‑10 (MQ=0)                        CCCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgacc                                                     <  1:1648890/101‑10 (MQ=0)                         CCCGCGGGGGCGTGGATCGAAACTCGGCCTCGATCCGGTCAGCCTCGTATTGCGCGCTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACttgatgacca                                                    <  1:4196191/101‑11 (MQ=0)                                                                           gcCGCGATCGTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGg  >  2:1246173/3‑100 (MQ=2)                                                ||||||||||||||||||||||||||||||||||||                                                                                             GCTTCCGCCTGCGTGGTCGCTCCCCCCGCGGGGGCGTGGATCGAAAC................................................................................................................................  >  NC_014034/1396954‑1397000 ...................................................................................GTCGCTCCCCCCGCGGGGGCGTGGATCGAAACGGTGTCCAGCGTCACATGCAGCGGCGTCGCATCGCCATGTCGCTCCCCCCGCGGGGGCGT  >  NC_014034/1397766‑1397857 Base quality scores:  ATCG  < 3 ≤  ATCG  < 21 ≤  ATCG  < 29 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG