New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1253890	28 (0.140)	43 (0.210)	2/178	34.1	0.50	intergenic (+48/+43)	RCAP_rcc01181/hisH	hypothetical protein/imidazole glycerol phosphate synthase subunit HisH
	?	NC_014034	= 2185844	58 (0.260)					intergenic (+117/‑388)	mtlK/RCAP_rcc02028	mannitol 2‑dehydrogenase/FeoA family protein
Rejected: Position hash score below cutoff.

CGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.G...................................................................................................  >  NC_014034/1253782‑1253890 ....................................................................................................GGGGGTGC.GGGGCGGAGCCCCCGCAGGGTCGCCTCGGCACCGCCGAGGCGAAACCGCTTTGCACATCAGGCGGCCCCGCCCGGGAGGGAGCGGGGCCGCCTGTTCCGG  <  NC_014034/2185844‑2185746                                                                                                                                                                                                                             GTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGG                                                                                                   <  2:1482646/101‑1 (MQ=1)           GTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGG                                                                                                   >  1:3004662/1‑101 (MQ=1)            TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGG                                                                                                  <  1:1981245/101‑1 (MQ=1)            TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGG                                                                                                  <  2:2829588/101‑1 (MQ=1)            TGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGG                                                                                                  >  2:2554340/1‑101 (MQ=1)             GCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGg                                                                                                 <  2:53212/101‑2 (MQ=1)             GCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGg                                                                                                 <  1:2059956/101‑2 (MQ=1)               TGGGCAAGCTCGGCTTCCAGCCCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATCCCTCGGGGGTGC.GGGGgcg                                                                                               <  1:2716882/101‑4 (MQ=0)               TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGgcg                                                                                               <  1:99134/101‑4 (MQ=1)               TGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGgcg                                                                                               <  1:304345/101‑4 (MQ=1)                GGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGgcgg                                                                                              <  1:2175364/101‑5 (MQ=1)                 GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGgcgga                                                                                             <  1:3086969/101‑6 (MQ=1)                 GGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGgcgga                                                                                             <  2:1676101/101‑6 (MQ=1)                 GGCAAGCTCGCCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.GGGGgcgga                                                                                             <  2:3127795/101‑6 (MQ=1)                   CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGC                                                                                            >  2:3477162/1‑101 (MQ=1)                   CAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGC                                                                                            <  2:1137939/101‑1 (MQ=1)                    aatCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCC                                                                                           <  2:2655417/98‑1 (MQ=1)                    AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCC                                                                                           <  2:2147067/101‑1 (MQ=1)                    AAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCC                                                                                           <  1:4206463/101‑1 (MQ=1)                     AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCC                                                                                          <  2:1308890/101‑1 (MQ=1)                     AGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCC                                                                                          <  2:1055339/101‑1 (MQ=1)                      GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCC                                                                                         <  2:2798068/101‑1 (MQ=1)                      GCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCC                                                                                         >  2:1276243/1‑101 (MQ=1)                       CTCGGCTTCCAGCCCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        <  2:3259412/101‑1 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        >  1:2736690/1‑101 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        <  2:3656738/101‑1 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        >  1:548740/1‑101 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        <  1:3929850/101‑1 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        <  2:511076/101‑1 (MQ=1)                       CTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCC                                                                                        <  2:2663262/101‑1 (MQ=1)                         CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGC                                                                                      >  2:2278980/1‑101 (MQ=11)                         CGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGGGCGGGGGCGGAGCCCCCGC                                                                                      >  2:1656170/1‑101 (MQ=11)                           GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCcg                                                                                    >  2:2106422/1‑99 (MQ=32)                           GCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCcg                                                                                    >  1:3076247/1‑99 (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                                                                           >  1:2332204/1‑101 (MQ=32)                                     CGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCG                                                                          >  2:4087145/1‑101 (MQ=32)                                         TGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGCGGGGGCGGAGCCCCCGCCGGGTCGCCTCGGCga                                                                      >  1:106824/1‑99 (MQ=32)                                                                                                 cgcCGGGGGTGCGGGGGCGGAGCCCCCGCAGGGTCGCCTCGGCACCGCCGAGGCGAAACCGCTTTGCACATCAGGCGGCCCCGCCCGGGAGGGAGCGGGGC              >  2:805735/4‑101 (MQ=38)                                                                                                    CGGGGGTGCGGGGGCGGAGCCCCCGCAGGGTCGCCTCGGCACCGCCGAGGCGAAACCGCTTTGCACATCAGGCGGCCCCGCCCGGGAGGGAGCGGGGCCGC           >  1:557377/1‑101 (MQ=35)                                                                                                    CGGGGGTGCGGGGGCGGAGCCCCCGCAGGGTCGCCTCGGCACCGCCGAGGCGAAACCGCTTTGCACATCAGGCGGCCCCGCCCGGGAGGGAGCGGGGCCGC           >  1:4257584/1‑101 (MQ=35)                                                                                                    CGGGGGTGCGGGGGCGGAGCCCCCGCAGGGTCGCCTCGGCACCGCCGAGGCGAAACCGCTTTGCACATCAGGCGGCCCCGCCCGGGAGGGAGCGGGGCCGC           >  1:3285711/1‑101 (MQ=35)                                                                                                                                                                                                                   CGCCGCGATGGTGCTGGGCAAGCTCGGCTTCCAGACCGGCTGCGCCTTCGAGGCGAAATAAACCGATCCCGCCCCGCTCTCATCTTGCCCTAAATACCTCGGGGGTGC.G...................................................................................................  >  NC_014034/1253782‑1253890 ....................................................................................................GGGGGTGC.GGGGCGGAGCCCCCGCAGGGTCGCCTCGGCACCGCCGAGGCGAAACCGCTTTGCACATCAGGCGGCCCCGCCCGGGAGGGAGCGGGGCCGCCTGTTCCGG  <  NC_014034/2185844‑2185746 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG