New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1253880	NA (NA)	34 (0.160)	3/176	29.5	0.30	intergenic (+38/+53)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 2577184	158 (0.670)					intergenic (+106/‑323)	fdx/purU	ferredoxin VI/formyltetrahydrofolate deformylase
Rejected: Position hash score below cutoff.

CCGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG................................................................................................  >  NC_014034/1253781‑1253880 ....................................................................................................CGGGGGTGCGGGGGCG..GCCCCCGCCGGGTCGCCTTGGCGAAGCCAAGGCGAAACGCTTTCGCGCCCAGGCAAAAGGCCGCCCGAAGGCGGCCGTTTCATCGCGATG  <  NC_014034/2577184‑2577079                                                                                                                                                                                                                                CTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGC                                                                                               >  1:661798/1‑101 (MQ=1)                TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG                                                                                              >  1:2025731/1‑101 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACGGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                           >  1:2703583/1‑101 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                           >  2:2443667/1‑101 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                          >  2:3840892/1‑100 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                          <  1:3545165/101‑2 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                          <  2:2827144/101‑2 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                          >  1:4188148/1‑100 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                          <  2:3112627/101‑2 (MQ=1)                  GGCAAGCCCGGCTTCCAGCCCGGCTGCGCCTTCGAGGCGAAATAAGCCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                          <  2:1825986/101‑2 (MQ=0)                   GCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gag                                                                                         <  1:1557360/101‑3 (MQ=1)                   GCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gag                                                                                         >  2:3067263/1‑99 (MQ=1)                   GCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gag                                                                                         >  1:2495775/1‑99 (MQ=1)                    CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagc                                                                                        >  2:1572530/1‑98 (MQ=1)                     gAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcc                                                                                       >  1:2367116/2‑97 (MQ=1)                     AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcc                                                                                       <  1:137938/101‑5 (MQ=1)                      AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccc                                                                                      >  1:1981053/1‑96 (MQ=1)                       GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccc                                                                                     <  1:2587790/101‑7 (MQ=1)                       GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccc                                                                                     >  1:2231121/1‑95 (MQ=1)                        CTCGGCTTCCAGGCCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                    <  2:3545062/101‑8 (MQ=1)                          CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccgc                                                                                  >  2:717039/1‑92 (MQ=11)                          CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccgc                                                                                  >  1:3911154/1‑92 (MQ=11)                           GGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCC                                                                                   >  1:1319769/1‑101 (MQ=31)                           GGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCC                                                                                   >  1:1166198/1‑101 (MQ=31)                            GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCG                                                                                  >  2:3903681/1‑101 (MQ=32)                             CTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGG                                                                                 >  2:635117/1‑101 (MQ=32)                              TTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGG                                                                                >  1:3475024/1‑101 (MQ=32)                              TTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGG                                                                                >  1:336941/1‑101 (MQ=32)                               TCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGg                                                                               >  1:3511123/1‑100 (MQ=17)                               TCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGc                                                                               >  2:2475433/1‑100 (MQ=17)                               TCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGT                                                                               >  1:2304504/1‑101 (MQ=32)                                CCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTC                                                                              >  2:425803/1‑101 (MQ=32)                                 CAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCG                                                                             >  2:156109/1‑101 (MQ=32)                                 CAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCG                                                                             >  2:4606596/1‑101 (MQ=32)                                                                                                                                                                                                                  CCGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG................................................................................................  >  NC_014034/1253781‑1253880 ....................................................................................................CGGGGGTGCGGGGGCG..GCCCCCGCCGGGTCGCCTTGGCGAAGCCAAGGCGAAACGCTTTCGCGCCCAGGCAAAAGGCCGCCCGAAGGCGGCCGTTTCATCGCGATG  <  NC_014034/2577184‑2577079 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG