New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	1253895 =	92 (0.260)	49 (0.140)	6/198	35.8	0.35	intergenic (+53/+38)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	1721522 =	90 (0.250)					intergenic (‑417/+29)	RCAP_rcc01588/RCAP_rcc01589	GSCFA family protein/ErfK/YbiS/YcfS/YnhG family protein
Rejected: Position hash score below cutoff.

CGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG................................................................................................  <  NC_014034/1253994‑1253895 ...................................................................................................GGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAC  >  NC_014034/1721522‑1721617                                                                                                                                                                                                      CGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGG                                                                                                 >  2:1179772/1‑101 (MQ=1)  GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGg                                                                                                <  1:1459395/101‑2 (MQ=1)  GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGg                                                                                                >  2:1700642/1‑100 (MQ=1)  GGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGg                                                                                                >  1:4320471/1‑100 (MQ=1)   GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgg                                                                                               >  1:1655901/1‑99 (MQ=1)   GAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgg                                                                                               <  1:4003273/101‑3 (MQ=1)    AGAAATCGCAGCGCACCGGGCTGCGGATCATCTGGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGggg                                                                                              >  1:3714720/1‑98 (MQ=0)    AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGggg                                                                                              >  2:4191632/1‑98 (MQ=1)    AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGggg                                                                                              <  2:2625924/101‑4 (MQ=1)    AGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGggg                                                                                              >  1:2650585/1‑98 (MQ=1)     cccgTCGCGGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggg                                                                                             >  2:2578407/5‑97 (MQ=0)     GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGGGGgggg                                                                                             >  1:1186445/1‑97 (MQ=1)     GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggg                                                                                             >  1:6455120/1‑97 (MQ=1)     GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggg                                                                                             >  1:6426510/1‑97 (MQ=1)     GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGCggg                                                                                             >  1:1721029/1‑98 (MQ=11)     GAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGAGGgggg                                                                                             >  2:5649773/1‑97 (MQ=1)      AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGggggg                                                                                            >  1:1381672/1‑96 (MQ=1)      AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggct                                                                                            <  1:5872321/101‑6 (MQ=1)      AAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggct                                                                                            <  2:1105198/101‑6 (MQ=1)       AATCGCAGCGCACCGGTCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctc                                                                                           <  2:1260788/101‑7 (MQ=1)       AATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctc                                                                                           <  1:6469896/101‑7 (MQ=1)        ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctcc                                                                                          <  2:6435732/101‑8 (MQ=1)        ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctcc                                                                                          <  2:490925/101‑8 (MQ=1)        ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctcc                                                                                          <  2:3607364/101‑8 (MQ=1)        ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctcc                                                                                          <  1:3252577/101‑8 (MQ=1)        ATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCAGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctcc                                                                                          <  2:1220632/101‑8 (MQ=1)         TCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctccg                                                                                         <  2:5735963/101‑9 (MQ=1)         TCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctccg                                                                                         <  2:3157891/101‑9 (MQ=1)           GCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGggggtccgcc                                                                                       >  1:3181375/1‑91 (MQ=1)           GCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGgggctccggc                                                                                       <  1:4254818/101‑11 (MQ=1)             AGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCGGGGGGGCCCCCcc                                                                                     >  1:1865610/1‑99 (MQ=2)                                                                                       gccccccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGG           <  1:2427656/93‑1 (MQ=255)                                                                                       cccccccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGG           <  2:3368527/93‑1 (MQ=255)                                                                                        ccccccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGG          <  1:375751/94‑1 (MQ=255)                                                                                         cccccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGC         <  1:4860744/95‑1 (MQ=255)                                                                                         cccccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGC         <  2:1490157/95‑1 (MQ=255)                                                                                           cccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCAT       <  2:2750210/97‑1 (MQ=255)                                                                                            ccgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATT      <  1:3886742/98‑1 (MQ=255)                                                                                             cgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTG     <  2:1050758/99‑1 (MQ=255)                                                                                             cgCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTG     <  2:6820756/99‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGA    <  1:1764641/100‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGA    <  1:6362643/100‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGA    <  2:4652771/100‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGA    <  2:4985396/100‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGA    <  1:4271010/100‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGA    <  2:850229/100‑1 (MQ=255)                                                                                              gCCGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCCGGGCATTGA    >  1:5681332/2‑101 (MQ=255)                                                                                                CGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAC  <  1:5822033/101‑1 (MQ=255)                                                                                                CGGGGGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAC  <  1:4528311/101‑1 (MQ=255)                                                                                                                                                                                                      CGGAGAAATCGCAGCGCACCGGGCTGCGGATCATCTCGAATTTCCTGAACTGGAAGCCGTGAGAGGATTTCGCCTCGGCTTTCGCCGAGGCGACCCGGCG................................................................................................  <  NC_014034/1253994‑1253895 ...................................................................................................GGCTGCGCCCCCGGACCCCCCCCGAAGATCTCAGATCACCTTGACCTGCGTGCCGACCGGGCAGAGCGGATAAAGTTCCTCGACCTGGGCATTGAAC  >  NC_014034/1721522‑1721617 Base quality scores:  ATCG  < 3 ≤  ATCG  < 21 ≤  ATCG  < 30 ≤  ATCG  < 34 ≤  ATCG  < 41 ≤  ATCG