New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_014034 = 9743071 (0.010)10 (0.050) 8/188 26.1 0.17 intergenic (+187/+72) RCAP_rcc00884/RCAP_rcc00885 hypothetical protein/hypothetical protein
?NC_014034 = 1103377 96 (0.450)intergenic (‑377/+41) ugpB/regA2 sn‑glycerol‑3‑phosphate‑binding periplasmic protein ugpB/photosynthetic apparatus regulatory protein RegA
Rejected: Position hash score below cutoff.

CCCCCCAGCGTATTTGCACCAAGAAAAAGCAGACGGGCGGGATCCGGCATGGCCG.TGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCCC.GGGGT..GTGCG.GAAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCCGCCGCAACGGCCGGTTCTC  >  NC_014034/974211‑974380
                                                                                                  |                                                                            
ccccccAGCGTATTTGCACCAAGAAAAAGCAGACGGGCGGGATCCGGCATGGCCGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCCC.gggggtc                                                                           <  1:3051432/101‑4 (MQ=255)
 cccccAGCGTATTTGCACCAAGAAAAAGCAGACGGGCGGGATCCGGCATGGCCGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATACC.ggggggcc                                                                          >  2:899301/1‑97 (MQ=38)
   cccAGCGTATTTGCACCAAGAAAAAGCAGACGGGCGGGATCCGGCATGGCCGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCCC.gggggtccgg                                                                        >  2:189695/1‑95 (MQ=39)
       gCGTATTTGCACCAAGAAAAATCAGACGGGCGGGATCCGGCATGGCCGCTGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCCC.gggggtccgggggc                                                                    <  2:2330993/101‑11 (MQ=37)
                                                                          cACCTTGCGACAAATATCCCGGGGGTCCGGGGGCGGAGCCCCCGGCGGGGGGGCGCGGCGGCAACCGCGGCGGGAAACACCCGCCGCAACGGCCggggctc  >  1:231320/1‑96 (MQ=0)
                                                                                                  |                                                                            
CCCCCCAGCGTATTTGCACCAAGAAAAAGCAGACGGGCGGGATCCGGCATGGCCG.TGCGCAGCGGCTTGTTTTCACCTTGCGACAAATATCCC.GGGGT..GTGCG.GAAGCCCCCGGCGGGTCGCCTCGGCGACAGCCGAGGCGAAATACCCCCGCCGCAACGGCCGGTTCTC  >  NC_014034/974211‑974380

Base quality scores:  ATCG  < 3 ≤  ATCG  < 11 ≤  ATCG  < 22 ≤  ATCG  < 31 ≤  ATCG  < 41 ≤  ATCG