New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1253880	NA (NA)	36 (0.180)	5/176	30.5	0.42	intergenic (+38/+53)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 2577184	101 (0.450)					intergenic (+106/‑323)	fdx/purU	ferredoxin VI/formyltetrahydrofolate deformylase
Rejected: Position hash score below cutoff.

CCGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG.............................................................................................  >  NC_014034/1253781‑1253880 ....................................................................................................CGGGGGTGCGGGGGCG..GCCCCCGCCGGGTCGCCTTGGCGAAGCCAAGGCGAAACGCTTTCGCGCCCAGGCAAAAGGCCGCCCGAAGGCGGCCGTTTCATCGCG  <  NC_014034/2577184‑2577082                                                                                                                                                                                                                           TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                              <  1:1981245/101‑1 (MQ=1)             TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                              <  2:2829588/101‑1 (MQ=1)             TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGG                                                                                              >  2:2554340/1‑101 (MQ=1)              GCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGG                                                                                             <  2:53212/101‑1 (MQ=1)              GCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGG                                                                                             <  1:2059956/101‑1 (MQ=1)                TGGGCAAGCTCGGCTTCCAGCCCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATCCCTCGGGGGTGCGGGGGCG                                                                                           <  1:2716882/101‑1 (MQ=0)                TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG                                                                                           <  1:304345/101‑1 (MQ=1)                TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG                                                                                           <  1:99134/101‑1 (MQ=1)                 GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..G                                                                                        <  1:2175364/101‑1 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                       <  2:1676101/101‑2 (MQ=1)                  GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                       <  1:3086969/101‑2 (MQ=1)                  GGCAAGCTCGCCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Ga                                                                                       <  2:3127795/101‑2 (MQ=1)                    CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagc                                                                                     >  2:3477162/1‑98 (MQ=1)                    CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagc                                                                                     <  2:1137939/101‑4 (MQ=1)                     aatCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcc                                                                                    <  2:2655417/98‑5 (MQ=1)                     AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcc                                                                                    <  1:4206463/101‑5 (MQ=1)                     AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcc                                                                                    <  2:2147067/101‑5 (MQ=1)                      AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccc                                                                                   <  2:1308890/101‑6 (MQ=1)                      AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccc                                                                                   <  2:1055339/101‑6 (MQ=1)                       GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccc                                                                                  >  2:1276243/1‑95 (MQ=1)                       GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccc                                                                                  <  2:2798068/101‑7 (MQ=1)                        CTCGGCTTCCAGCCCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 <  2:3259412/101‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 <  2:3656738/101‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 >  1:548740/1‑94 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 <  1:3929850/101‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 >  1:2736690/1‑94 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 <  2:511076/101‑8 (MQ=1)                        CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagccccc                                                                                 <  2:2663262/101‑8 (MQ=1)                          CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCG..Gagcccccgc                                                                               >  2:2278980/1‑92 (MQ=11)                            GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCG                                                                               >  2:2106422/1‑101 (MQ=32)                            GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCG                                                                               >  1:3076247/1‑101 (MQ=32)                             CTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGG                                                                              >  1:2923627/1‑101 (MQ=32)                                CCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTC                                                                           >  2:3607159/1‑101 (MQ=32)                                 CAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCG                                                                          >  1:2299014/1‑101 (MQ=32)                                  AGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGC                                                                         >  1:3919943/1‑101 (MQ=32)                                     CCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTc                                                                      >  1:2332204/1‑100 (MQ=32)                                                                                                                                                                                                               CCGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG.............................................................................................  >  NC_014034/1253781‑1253880 ....................................................................................................CGGGGGTGCGGGGGCG..GCCCCCGCCGGGTCGCCTTGGCGAAGCCAAGGCGAAACGCTTTCGCGCCCAGGCAAAAGGCCGCCCGAAGGCGGCCGTTTCATCGCG  <  NC_014034/2577184‑2577082 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG