New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1253895 =	28 (0.150)	25 (0.130)	7/164	27.4	0.33	intergenic (+53/+38)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 2590203	73 (0.320)					intergenic (‑102/‑154)	glnE/RCAP_rcc02415	glutamate‑ammonia‑ligase adenylyltransferase/hypothetical protein
Rejected: Position hash score below cutoff.

TCGGCACGCAGTTCCACCCGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG....................................................................................................  <  NC_014034/1254012‑1253895 ....................................................................................................CGCCGAGGCGACCCGGCGGGGGCGCTGCCCCCCGCACCCCCCGGGATATTCGCGCCAAGATGACAGGGGCGGGGCATTTGCGCGCCTTGACCCGGGGCTTGCGGCGGCTAGTCTGGCG  <  NC_014034/2590203‑2590104                                                                                                                                                                                                                                              CGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGG                                                                                                     <  2:1200690/101‑1 (MQ=1)                     GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGG                                                                                                   <  2:3016736/101‑1 (MQ=1)                     GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGG                                                                                                   <  2:2001306/101‑1 (MQ=1)                     GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGG                                                                                                   <  2:1961816/101‑1 (MQ=1)                     GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGG                                                                                                   <  2:1723697/101‑1 (MQ=1)                      gGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGG                                                                                                  <  1:3323764/100‑1 (MQ=1)                      AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGG                                                                                                  >  1:1656276/1‑101 (MQ=1)                       GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGC                                                                                                 <  2:3051593/101‑1 (MQ=1)                        AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGgc                                                                                                >  2:1451238/1‑99 (MQ=1)                        AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCt                                                                                                <  2:2231343/101‑2 (MQ=1)                        AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCt                                                                                                <  2:1863516/101‑2 (MQ=1)                         AATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCtc                                                                                               <  1:3383119/101‑3 (MQ=1)                          ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGGGCc                                                                                              >  1:4331141/1‑100 (MQ=1)                          ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCtcc                                                                                              <  2:764841/101‑4 (MQ=1)                          ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCtcc                                                                                              <  2:1639168/101‑4 (MQ=1)                           TCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCtccg                                                                                             <  2:2647070/101‑5 (MQ=1)                            CGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGAGGagatgcc                                                                                            >  2:579824/1‑94 (MQ=0)                             GCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCC                                                                                           <  2:3223851/101‑1 (MQ=1)                              CAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGGGGggggggcc                                                                                          >  1:26638/1‑93 (MQ=0)                               AGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCC                                                                                         <  1:1987220/101‑1 (MQ=1)                                GCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCC                                                                                        <  2:27410/101‑1 (MQ=1)                                   CACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCGCCCCCgca                                                                                     <  1:1383334/101‑4 (MQ=31)                                       GGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCG.CCCCCGCACCCC                                                                                <  1:1151499/101‑1 (MQ=32)                                        GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCG.CCCCCGCACCCCC                                                                               <  2:1491006/101‑1 (MQ=32)                                        GGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGCTCCG.CCCCCGCACCCCC                                                                               <  2:2399808/101‑1 (MQ=32)                                                                                                                                                                                                                            TCGGCACGCAGTTCCACCCGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG....................................................................................................  <  NC_014034/1254012‑1253895 ....................................................................................................CGCCGAGGCGACCCGGCGGGGGCGCTGCCCCCCGCACCCCCCGGGATATTCGCGCCAAGATGACAGGGGCGGGGCATTTGCGCGCCTTGACCCGGGGCTTGCGGCGGCTAGTCTGGCG  <  NC_014034/2590203‑2590104 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG