New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	= 2330295	24 (0.090)	46 (0.160)	14/192	31.9	0.66	intergenic (+270/+42)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2330296 =	24 (0.080)					intergenic (+271/+41)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
Rejected: Position hash score below cutoff.

TATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGAT  >  NC_014034/2330195‑2330387                                                                                                       |                                                                                                      tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g                                                                                                       >  1:333753/1‑101 (MQ=255) tATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g                                                                                                       >  1:3680493/1‑101 (MQ=255) tATGTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..g                                                                                                       <  2:5421633/101‑1 (MQ=255)  aTTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gc                                                                                                      >  1:2806085/1‑100 (MQ=255)   tttGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcg                                                                                                     <  2:1221700/101‑3 (MQ=255)    ttGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcgg                                                                                                    <  1:5424391/101‑4 (MQ=255)     tGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcgga                                                                                                   <  1:2344184/101‑5 (MQ=255)       cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagc                                                                                                 <  2:1540063/101‑7 (MQ=255)       cgcCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCAGCTTTCACCTGTGGCCAAAGAtcccgcgggtccgggg..gcggagc                                                                                                 >  2:5460692/1‑95 (MQ=38)         ccAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagccc                                                                                               <  2:1653667/101‑9 (MQ=255)          cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccgggggtccgggg..gcggagcccc                                                                                              <  1:3681417/101‑10 (MQ=38)          cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGAtcccggggggccgggg..gcggagcccc                                                                                              >  2:1111262/1‑92 (MQ=255)          cAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G..cggagcccc                                                                                       <  2:3702726/101‑9 (MQ=38)           aaGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G..cggagccccc                                                                                      <  1:5354894/101‑10 (MQ=38)            aGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGGCAAAGAtccctggggcccgggg..g....gggagcccccg                                                                                        >  2:5087575/1‑91 (MQ=255)            aGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGT.CCGGG..G....G..cggagcccccg                                                                                     <  1:4511114/101‑11 (MQ=38)                           gcgcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGc                                                                           <  2:711806/101‑1 (MQ=25)                            cgcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGAgggc                                                                          >  1:3725784/1‑99 (MQ=21)                             gcATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCGGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCAt                                                                         <  1:2703923/101‑1 (MQ=21)                              cATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATc                                                                        <  1:780240/101‑1 (MQ=25)                               aTGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGTGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCg                                                                       <  2:1878473/101‑1 (MQ=25)                                     ggCCCGGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.gg                                                               <  2:4815746/101‑1 (MQ=21)                                      gCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGCGGCAttcgcccgcg                                                                >  2:3615164/1‑92 (MQ=18)                                         ccGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGCGGCAGCGCCC.C.GCCgca                                                           >  1:5723720/1‑99 (MQ=16)                                           ggATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGGCGCGGGATCGCCC.C.CGCG.aaaa                                                        >  2:1500891/1‑100 (MQ=16)                                             aTCGCCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATcc                                                      <  1:4610341/101‑1 (MQ=21)                                                 ccGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTa                                                  <  1:470124/101‑1 (MQ=25)                                                  cggcggCCGGGGCGGCTTTCACCTGGGGCCAAAGATCCGGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAg                                                 <  1:4571700/101‑1 (MQ=21)                                                  cggcggCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAg                                                 <  1:3532975/101‑1 (MQ=25)                                                  cggcggCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAg                                                 <  2:3680265/101‑1 (MQ=25)                                                   gggggcCGGGGCGGCTTCCCCCGGGGCCAAAAGATCCGGGGGGCCGGGGGGCG....GACCCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGt                                                <  2:3976790/98‑1 (MQ=12)                                                      ggcCGGGGCGGCTTTCACCGGGGGCCAAAGACCCGGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTaaa                                             <  2:2901894/101‑1 (MQ=21)                                                      ggcCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCCGCGCCC.C.CGCG.GAAACCCCTCGTaaa                                             >  2:4840662/1‑101 (MQ=9)                                                          cGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGGGGCGTCGCCC.C.CGCG.GAATCCCCTTGTaaaaaac                                         >  1:3660852/1‑97 (MQ=9)                                                            ggcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGAccgc                                       <  2:1718757/101‑1 (MQ=25)                                                             gcggcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCAGCGCCC.C.CGCG.GAATCCCTTTGTAAAGAccccc                                      >  2:1689011/1‑101 (MQ=12)                                                                gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGGGGCATCGCCC.CTGGGC.AAACCCCTTTTTAAAAAccgcccc                                    >  2:5756380/1‑100 (MQ=2)                                                                gcTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGAGGGCTCGCCC.C.GGCG.AAAACCCCTAATaaaaaacaccccc                                   >  2:343808/1‑91 (MQ=9)                                                                 cTTTCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGGGTCGCCT.C.CGCG.GAAACCCTTTTTAAAGAACGCCcccg                                  >  1:1290974/1‑101 (MQ=9)                                                                  tttCACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCAAAGCCC.C.CGCG.GAAACCCCTTGTAAAAAACGCCCCCgg                                 >  2:3985151/1‑101 (MQ=2)                                                                     cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACa                              <  1:2258589/101‑1 (MQ=21)                                                                     cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCATCGCCC.C.GGCG.GAAAACCTTAGTAAAAACCGCCCCCGGAcc                              >  2:1223338/1‑100 (MQ=12)                                                                     cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGCGGCATCGCCT.C.CGCG.AAAACCCCTCGTAAAGAACGCCCGCgggcc                              >  2:4954994/1‑98 (MQ=12)                                                                     cACCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCCGCGCGGGATCGCCTCC.GGCA.AACCCCCTTGTTAAAAACCCCCcccgcca                               >  1:2878178/1‑98 (MQ=2)                                                                      aCCTGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGGCCGGGGCAACGCCC.C.GGCG.GAATCCCCTAGTAAAAAACGCCCGCCGGCAg                             >  1:5677056/1‑101 (MQ=2)                                                                         tGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGa                          <  2:750643/101‑1 (MQ=21)                                                                         tGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGGATCGCCT.C.CGCG.AAAACCCCTAGTAAAAAACGCCCCCGGGCCgggg                          >  2:628769/1‑100 (MQ=2)                                                                         tGGGGCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGCGGGAAGGCCC.C.GGCG.CAAAACCTTACTAAAGAACGCCCCCgggacgggg                          >  1:469063/1‑94 (MQ=0)                                                                          ggggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGAt                         <  1:3049425/101‑1 (MQ=21)                                                                           gggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGGCCCCAGGCACCGCCC.C.GGGG.AAAACCCCTAGTAAAAACAGCCCCCGGGCCggggcc                        >  1:5226542/1‑98 (MQ=2)                                                                            ggCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATcc                       <  1:876749/101‑1 (MQ=21)                                                                             gCCAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGCATCTCCT.C.GGCG.AAATCCCCTAGTAAAGACCCCCCCCGGGCCGGGAGCCg                      >  1:745034/1‑101 (MQ=9)                                                                              ccAAAGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGAGGCATCGCCC.C.CGCGCAAAACCGTAATAAAAAACCGCCC.CCGACAGGGGACCGa                     >  2:5256341/1‑101 (MQ=2)                                                                                aaaGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGGCGGGGCATTCGCT.C.GGCG.AAAAACCTTAGTAAAGCACGCCCCCCGGCGAGGGTCCGAAg                   >  2:665765/1‑101 (MQ=0)                                                                                 aaGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGGGGGACCGCCC.C.GGCG.CAATCCCCTAGTAAAAACCCCCCGCGGGCAGGGAGCCGCAgg                  >  1:3211471/1‑101 (MQ=9)                                                                                 aaGATCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGGCGCCGAGGGATCGCCT.C.GGCG.AAAACCCTTAGTAAAAACAGCCCGCGGACAGGGATCCGAAgg                  >  2:5014365/1‑101 (MQ=18)                                                                                    aTCCCGGGGGTCCGGGG..GCGGAG..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCg               <  2:5591475/101‑1 (MQ=25)                                                                                             gggggcgg..g....c..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGAt  <  2:469013/95‑1 (MQ=255)                                                                                                       |                                                                                                      TATTTGCGCCAAGAAAAAGCCGGGGCGCGCATGCGGGGCCCCGGATCACCGGCGGCCCGGGCGGCTTTCACCTGGGGCCAAAGATCCCGGGGGTCCCGGG..G....G..CCCCCGGCGGGTCGCCGAGGCATCGCCT.C.GGCG.AAATCCCTTAGTAAAGACCGCCCGCGGACAGGGATCCGAAGGTCGCCTTCTTCGGGAT  >  NC_014034/2330195‑2330387 Base quality scores:  ATCG  < 3 ≤  ATCG  < 15 ≤  ATCG  < 24 ≤  ATCG  < 33 ≤  ATCG  < 40 ≤  ATCG