New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1253880	NA (NA)	48 (0.220)	8/176	22.7	0.36	intergenic (+38/+53)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 2577184	174 (0.710)					intergenic (+106/‑323)	fdx/purU	ferredoxin VI/formyltetrahydrofolate deformylase
Rejected: Position hash score below cutoff.

CCGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG.................................................................................................  >  NC_014034/1253781‑1253880 ....................................................................................................CGGGGGTGCGGGGGCG..GCCCCCGCCGGGTCGCCTTGGCGAAGCCAAGGCGAAACGCTTTCGCGCCCAGGCAAAAGGCCGCCCGAAGGCGGCCGTTTCATCGCGATGT  <  NC_014034/2577184‑2577078                                                                                                                                                                                                                               gtCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                                  <  2:1753883/99‑1 (MQ=1)             TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                                  <  2:895181/101‑1 (MQ=1)             TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                                  <  2:4624016/101‑1 (MQ=1)             TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                                  <  1:3612869/101‑1 (MQ=1)              GCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCGTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGG                                                                                                 <  2:1346682/101‑1 (MQ=1)              GCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGG                                                                                                 >  2:3594383/1‑101 (MQ=1)               tctGGCAGGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGC                                                                                                <  1:1757047/98‑1 (MQ=0)               CTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGTGTGCGGGGGC                                                                                                <  2:3749642/101‑1 (MQ=1)               CTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGC                                                                                                <  1:4097759/101‑1 (MQ=1)               CTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGC                                                                                                <  1:4197647/101‑1 (MQ=1)                TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG                                                                                               >  1:4863853/1‑101 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                            <  2:2232215/101‑1 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                            <  2:506601/101‑1 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                            <  2:4992563/101‑1 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                            >  1:408207/1‑101 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                            >  1:2386431/1‑101 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                            <  1:4628746/101‑1 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGTGGGCG..Ga                                                                                           <  1:2024283/101‑2 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCaga                                                                                             >  2:1756917/1‑98 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                           <  1:1980523/101‑2 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                           <  2:4294677/101‑2 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCCCGGGGGTGCGGGGGGG..Ga                                                                                           >  1:2140024/1‑100 (MQ=0)                   GCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gag                                                                                          <  2:4609684/101‑3 (MQ=1)                   GCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gag                                                                                          <  2:3848099/101‑3 (MQ=1)                    CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGCGCGGGGGCG..Gagc                                                                                         >  1:4503486/1‑98 (MQ=1)                      AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccc                                                                                       >  2:3229788/1‑96 (MQ=1)                        ccCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                     <  2:127770/99‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                     <  1:59153/101‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                     <  2:646284/101‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGGGCGGGGGCG..Gagccccc                                                                                     >  2:4566317/1‑94 (MQ=1)                         TCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccg                                                                                    >  2:604280/1‑93 (MQ=1)                         TCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccg                                                                                    >  1:3543646/1‑93 (MQ=1)                         TCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccg                                                                                    >  2:3021901/1‑93 (MQ=1)                          CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccgc                                                                                   >  1:3450791/1‑92 (MQ=11)                          CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccgc                                                                                   >  1:3190604/1‑92 (MQ=11)                           GGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCC                                                                                    >  2:3981516/1‑101 (MQ=31)                           GGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCC                                                                                    >  1:3898065/1‑101 (MQ=31)                            GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCG                                                                                   >  2:2108552/1‑101 (MQ=32)                             CTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGG                                                                                  >  1:3762198/1‑101 (MQ=32)                              TTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGG                                                                                 >  1:718549/1‑101 (MQ=32)                              TTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGG                                                                                 >  1:2497099/1‑101 (MQ=32)                               TCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGT                                                                                >  2:1093332/1‑101 (MQ=32)                                CCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTC                                                                               >  2:35233/1‑101 (MQ=32)                                CCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTC                                                                               >  2:2450411/1‑101 (MQ=32)                                 CAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCG                                                                              >  2:4029695/1‑101 (MQ=32)                                   GACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCC                                                                            >  2:1747642/1‑101 (MQ=32)                                     CCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTc                                                                          >  2:455902/1‑100 (MQ=32)                                     CCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTc                                                                          >  2:1133117/1‑100 (MQ=32)                                                                                                                                                                                                                   CCGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG.................................................................................................  >  NC_014034/1253781‑1253880 ....................................................................................................CGGGGGTGCGGGGGCG..GCCCCCGCCGGGTCGCCTTGGCGAAGCCAAGGCGAAACGCTTTCGCGCCCAGGCAAAAGGCCGCCCGAAGGCGGCCGTTTCATCGCGATGT  <  NC_014034/2577184‑2577078 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG