New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 1103383	91 (0.480)	32 (0.170)	17/180	19.6	0.34	intergenic (‑383/+35)	ugpB/regA2	sn‑glycerol‑3‑phosphate‑binding periplasmic protein ugpB/photosynthetic apparatus regulatory protein RegA
	?	NC_014034	= 2330280	32 (0.150)					intergenic (+255/+57)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

AGGCGGACCGGCGCCGCGACGGAGAGGTCCGAACGCGGGGGGCGCCTCGGGGCGATTTCGCCGCGCGGCCGCGCGGCGATCCGCCGGGGGCTCCGCCCCCGGACCCCCGG....................................................................................................  >  NC_014034/1103274‑1103383 ....................................................................................................GGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGG  <  NC_014034/2330280‑2330181                                                                                                                                                                                                                                                                                        ggcCGCGGCGCCCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCG                                           <  2:257504/98‑1 (MQ=2)                                                                      gcctCGGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGC                                          >  2:2760031/5‑101 (MQ=11)                                                                        ctCGGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGC                                        >  2:1812091/3‑101 (MQ=11)                                                                           gcccccCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCC                                     <  1:1385747/95‑1 (MQ=1)                                                                           GGCGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCC                                     <  1:2556730/101‑1 (MQ=1)                                                                            gccccCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCG                                    <  2:102775/96‑1 (MQ=1)                                                                             gcacCCGCCGGGGGCTCCGACCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGG                                   <  1:400121/97‑1 (MQ=1)                                                                             CGACCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGG                                   >  1:1947808/1‑101 (MQ=1)                                                                               ccCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCT                                 <  2:3753598/99‑1 (MQ=1)                                                                                cCCGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCTCGCCCCGGCTT                                <  1:2856346/100‑1 (MQ=1)                                                                                  CGCCGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTT                              <  1:2362203/101‑1 (MQ=1)                                                                                     CGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCT                           >  2:283358/1‑101 (MQ=1)                                                                                     CGGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGACGCCCGGGCCGCCGGTGATCCGGGGCCCCGCACGCGCGCCCCGGCGTTTTCT                           >  1:1102860/1‑101 (MQ=0)                                                                                     CGGGGCCTTCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCCCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCT                           <  1:4008319/101‑1 (MQ=0)                                                                                      GGGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTT                          <  1:815853/101‑1 (MQ=1)                                                                                       GGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTG                         <  2:957855/101‑1 (MQ=1)                                                                                       GGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTG                         >  1:75361/1‑101 (MQ=1)                                                                                       GGGGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTG                         <  1:1322437/101‑1 (MQ=1)                                                                                         GGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGC                       >  2:122333/1‑101 (MQ=1)                                                                                         GGCTCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGC                       >  1:2551832/1‑101 (MQ=1)                                                                                            TCCGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCA                    >  2:2991344/1‑101 (MQ=1)                                                                                              CGCCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAA                  <  1:374631/101‑1 (MQ=1)                                                                                                CCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATA                >  1:714198/1‑101 (MQ=1)                                                                                                CCCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATA                <  1:1901/101‑1 (MQ=1)                                                                                                 CCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATAC               <  2:2263649/101‑1 (MQ=1)                                                                                                 CCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATAC               >  1:3052015/1‑101 (MQ=1)                                                                                                 CCCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATAC               <  2:496104/101‑1 (MQ=1)                                                                                                  CCCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACG              <  2:75346/101‑1 (MQ=1)                                                                                                   CCGGGCCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGC             <  1:859780/101‑1 (MQ=1)                                                                                                   CCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGC             >  2:2412673/1‑101 (MQ=1)                                                                                                   CCGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGC             >  1:1644508/1‑101 (MQ=1)                                                                                                    CGGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCC            >  1:3684590/1‑101 (MQ=1)                                                                                                                                                                                                                    AGGCGGACCGGCGCCGCGACGGAGAGGTCCGAACGCGGGGGGCGCCTCGGGGCGATTTCGCCGCGCGGCCGCGCGGCGATCCGCCGGGGGCTCCGCCCCCGGACCCCCGG....................................................................................................  >  NC_014034/1103274‑1103383 ....................................................................................................GGACCCCCGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGG  <  NC_014034/2330280‑2330181 Base quality scores:  ATCG  < 3 ≤  ATCG  < 18 ≤  ATCG  < 26 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG