New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1253890	28 (0.140)	36 (0.180)	3/178	32.9	0.39	intergenic (+48/+43)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	2590190 =	86 (0.380)					intergenic (‑89/‑167)	glnE/RCAP_rcc02415	glutamate‑ammonia‑ligase adenylyltransferase/hypothetical protein
Rejected: Position hash score below cutoff.

CGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCG...................................................................................................  >  NC_014034/1253782‑1253890 ....................................................................................................GGGGGTGCGGGGGGCAGCGCCCCCGCCGGGTCGCCTCGGCGCAAGCCGAGGCGAAATCTCTCCCCGACCCCTTGCGGCGCAATGTAAAAATCTTTCACATCCCCTCTT  >  NC_014034/2590190‑2590288                                                                                                                                                                                                                            GTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG                                                                                                   <  2:1482646/101‑1 (MQ=1)           GTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGG                                                                                                   >  1:3004662/1‑101 (MQ=1)            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                                                                                               <  1:2716882/101‑3 (MQ=0)               TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcg                                                                                               <  1:304345/101‑3 (MQ=1)               TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcg                                                                                               <  1:99134/101‑3 (MQ=1)                GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcgg                                                                                              <  1:2175364/101‑4 (MQ=1)                 GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcgga                                                                                             <  2:1676101/101‑5 (MQ=1)                 GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcgga                                                                                             <  1:3086969/101‑5 (MQ=1)                 GGCAAGCTCGCCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcgga                                                                                             <  2:3127795/101‑5 (MQ=1)                   CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagc                                                                                           <  2:1137939/101‑7 (MQ=1)                   CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagc                                                                                           >  2:3477162/1‑95 (MQ=1)                    aatCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagcc                                                                                          <  2:2655417/98‑8 (MQ=1)                    AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagcc                                                                                          <  1:4206463/101‑8 (MQ=1)                    AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagcc                                                                                          <  2:2147067/101‑8 (MQ=1)                     AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccc                                                                                         <  2:1055339/101‑9 (MQ=1)                     AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccc                                                                                         <  2:1308890/101‑9 (MQ=1)                      GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagcccc                                                                                        <  2:2798068/101‑10 (MQ=1)                      GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagcccc                                                                                        >  2:1276243/1‑92 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccccc                                                                                       <  2:2663262/101‑11 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccccc                                                                                       <  2:3656738/101‑11 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccccc                                                                                       <  2:511076/101‑11 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccccc                                                                                       >  1:548740/1‑91 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccccc                                                                                       <  1:3929850/101‑11 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGcggagccccc                                                                                       >  1:2736690/1‑91 (MQ=1)                         CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGC                                                                                    >  2:2278980/1‑101 (MQ=11)                           GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCG                                                                                  >  2:2106422/1‑101 (MQ=32)                           GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCG                                                                                  >  1:3076247/1‑101 (MQ=32)                            CTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCGG                                                                                 >  1:2923627/1‑101 (MQ=32)                               CCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCGGGTC                                                                              >  2:3607159/1‑101 (MQ=32)                                CAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCGGGTCG                                                                             >  1:2299014/1‑101 (MQ=32)                                 AGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCGGGTCGC                                                                            >  1:3919943/1‑101 (MQ=32)                                    CCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCGGGTCGCCTC                                                                         >  1:2332204/1‑101 (MQ=32)                                     CGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGGCGGAGCCCCCGCCGGGTCGCCTCG                                                                        >  2:4087145/1‑101 (MQ=32)                                                                                                                                                                                                                  CGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCG...................................................................................................  >  NC_014034/1253782‑1253890 ....................................................................................................GGGGGTGCGGGGGGCAGCGCCCCCGCCGGGTCGCCTCGGCGCAAGCCGAGGCGAAATCTCTCCCCGACCCCTTGCGGCGCAATGTAAAAATCTTTCACATCCCCTCTT  >  NC_014034/2590190‑2590288 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG