New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 510081	87 (0.400)	23 (0.110)	15/184	25.7	0.28	intergenic (+68/+119)	RCAP_rcc00475/RCAP_rcc00476	acyl‑CoA dehydrogenase domain‑containing protein/hypothetical protein
	?	NC_014034	= 2330282	33 (0.140)					intergenic (+257/+55)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

CGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGT  >  NC_014034/2330182‑2330372                                                                                                     |                                                                                                      cggatccccGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc                                                                                                       >  2:2153293/6‑101 (MQ=255) cGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc                                                                                                       <  1:4665498/101‑1 (MQ=255) cGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc                                                                                                       >  2:1999145/1‑101 (MQ=255) cGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtccc                                                                                                       <  2:1480924/101‑1 (MQ=255)  gCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccg                                                                                                      >  2:4255634/1‑101 (MQ=255)  gCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccg                                                                                                      <  2:1851496/101‑1 (MQ=255)  gCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccg                                                                                                      <  2:3275694/101‑1 (MQ=255)   cACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgg                                                                                                     >  2:1361299/1‑101 (MQ=255)    ccccccGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggg                                                                                                    <  2:4283487/100‑1 (MQ=255)    ccccccGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggg                                                                                                    <  2:3295593/100‑1 (MQ=255)    aCCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggg                                                                                                    >  1:550445/1‑101 (MQ=255)      ccccGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggggg                                                                                                  >  2:1357098/1‑101 (MQ=255)       cccGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggt                                                                                                 <  1:3253591/101‑1 (MQ=255)       cccGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggt                                                                                                 <  1:1999285/101‑1 (MQ=255)         cGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtcc                                                                                               >  2:3362188/1‑101 (MQ=255)          ggCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCAACTGGGGCCAAAGAtcccgggggtccg                                                                                              >  1:2799402/1‑100 (MQ=255)           gCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgg                                                                                             <  1:775002/101‑3 (MQ=255)            cGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccggg                                                                                            <  1:311487/101‑1 (MQ=255)              tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g                                                                                        >  2:2523131/1‑101 (MQ=255)                agtgggtcAAGAAAAAGCCGGGGCCCGCATGCGGGGCCCCGGATCACCGCCGGCCCGGGCGGCCTTCACCTGGGGCCCAAGAtcccgggggtccgggg..gcg                                                                                      >  2:3828701/8‑99 (MQ=255)                  tGCGCCAAGAAAANGCNGGGGCGCNCNNNNNGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcgga                                                                                    <  1:590716/101‑5 (MQ=38)                      ccAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagccc                                                                                >  1:2137467/1‑93 (MQ=255)                       cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagcccc                                                                               >  2:3976145/1‑92 (MQ=38)                        aaGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGAGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G.....cggagccccc                                                                    <  1:4136423/101‑10 (MQ=37)                         aGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G.....cggagcccccg                                                                   <  1:2426598/101‑11 (MQ=38)                                     ggCGCGCAGGCGGGGCCCCGGATCCCCGGCGGCCCGGGCGGCTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGa                                                            <  1:3371816/101‑1 (MQ=18)                                          gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCCCGGCAt                                                       >  1:2255344/1‑101 (MQ=21)                                            aTGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGAGGccacc                                                     >  2:2723659/1‑97 (MQ=21)                                               gggggCCCCGGCCCCCGGGCGGCCCGGGCGGC.TCCCCCGGGGGGCAAAAGCCCCGGGGGGCGGGGG..G....GCGGCCCCCCCGGCGGGTCGCCGAGGCATCGCCt                                                  <  2:1905488/100‑1 (MQ=255)                                                ggggCCCCGGATCCCCGGCGGCCCGGGCGGCTTTCCCCGGGGGCCAAAGATCCGGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTc                                                 <  1:2632290/101‑1 (MQ=18)                                                ggggCCCCGGATCACCGGCGGCCGGGGCGGCTTTCCCCGGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTc                                                 <  1:1361394/101‑1 (MQ=18)                                                ggggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGCGGCACCGcccc                                                 >  1:824036/1‑99 (MQ=18)                                                 gggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGGGGCAGCGccccc                                                >  2:3098302/1‑98 (MQ=18)                                                 gggCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGGGGCGACGCCCCg                                                >  1:2811404/1‑101 (MQ=18)                                                   gCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGCGGGCCCGCCTCggg                                              >  2:1370207/1‑100 (MQ=16)                                                    ccccGGACCCCGGGCGGCCGGGGCGGCTTTCGCCGGGGGCCAAAGACCCGGGGGGTCGGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCg                                             <  1:202039/101‑1 (MQ=12)                                                          aTCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGCGGCCTCGCCCCGGCGGAAAcc                                       >  2:3536347/1‑101 (MQ=12)                                                                  cggcCCGGGGGGCTTGCACGTGGGGCCAAGGTGCCGGGGGGTCGGGGG..GCGGAG.....CCCCGGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTaa                               <  1:4313617/101‑1 (MQ=255)                                                                    gcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGGGCCGAGGCATCGCCCCGGGGAAAAccccttttaaaa                             >  2:4086862/1‑92 (MQ=12)                                                                       cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAcc                          <  1:4092047/101‑1 (MQ=25)                                                                       cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGGGCCCGGGGATCGCCCCGGCGACAAACCTTATTaaaaaac                          >  2:68326/1‑97 (MQ=9)                                                                       cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGGGGGAGCGCCCCGGGGGAAACCCTTAGTaaaaaac                          >  1:3467715/1‑97 (MQ=9)                                                                        gggCGGCTTTCCCCTGGGGCCAAAGACCCCGGGGGTCCGGGGGCG....GAC...CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccg                         <  1:3098546/101‑1 (MQ=21)                                                                        gggCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGGGGCGAGGCGTCGCCTCCGCGGCATCCCCTTGGAAAAAccg                         >  1:1609374/1‑101 (MQ=9)                                                                         ggcggcTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgc                        <  2:2971730/101‑1 (MQ=21)                                                                           cggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGGCGAGGCGGCGCCCCCGCGGAAACCCCTCGTACAAAccgccc                      >  1:1623131/1‑101 (MQ=9)                                                                            gtcTTTCGCCGGGGGCCAAAGACCCGGGGGGTCGGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgcccg                     <  2:2799186/99‑1 (MQ=16)                                                                            gtcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgcccg                     <  2:4542101/99‑1 (MQ=21)                                                                             gcTTTCCCCTGGGGCCAAAGATCCCGGGGGTCCGGGGGCG....GCC...CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGAccgcccgc                    <  1:3843164/101‑1 (MQ=25)                                                                               tttCACCTGGGGCCAAAGATCCCGGGGGTCGGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCgg                  <  1:3074994/101‑1 (MQ=21)                                                                               tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGAGGGAACGCCCCGGCGAAAACCCCTTGTAAAAAACCNCCNCgg                  >  1:737228/1‑101 (MQ=9)                                                                                ttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCCGGGGAACGCCTCGGCGAAAACCCCTTGTAAAAACCACCCCCGGa                 >  2:1469658/1‑101 (MQ=2)                                                                                     cTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAggg            <  2:3498500/101‑1 (MQ=21)                                                                                           ccAAAGATCCGGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGa      <  2:2870567/101‑1 (MQ=21)                                                                                           ccAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGa      <  2:651872/101‑1 (MQ=21)                                                                                            cAAAGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGGGGGGTCGCCCCGGCGCAATACCCTAGTAAAAAACGCCCCCGGACCGGGAGCCGaa     >  1:199387/1‑101 (MQ=2)                                                                                             aaaGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGAGGGATCGCCTCGGCGAAAACCCTTAGTAAAAACCCCCCGCGGGCAggggaccgcag    >  2:1128968/1‑93 (MQ=12)                                                                                               aGATCCCGGGGGTCCGGGG..GCGGTG.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGt  <  1:4255922/101‑1 (MQ=25)                                                                                               aGATCCCGGGGGTCCGGGG..GCGGAG.....CCCCCGGCGGGGCGCCGCGGGATCGCCTCGGCGCAAACCCTTAGTAAAAACCCCCCCCGGACAcggggccccaggg  >  2:1815489/1‑91 (MQ=2)                                                                                                     |                                                                                                      CGCACCCCCGGCGTATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G.....CCCCCGGCGGGTCGCCGAGGCATCGCCTCGGCGAAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGT  >  NC_014034/2330182‑2330372 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 25 ≤  ATCG  < 33 ≤  ATCG  < 41 ≤  ATCG