New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	2330179 =	29 (0.130)	32 (0.140)	18/194	25.0	0.21	intergenic (+154/+158)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	2555842 =	213 (0.900)					intergenic (‑705/+41)	mraZ/RCAP_rcc02384	protein MraZ/Mrp/NBP35 family protein
Rejected: Position hash score below cutoff.

GGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG....................................................................................................  <  NC_014034/2330281‑2330179 ....................................................................................................GGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCCCCGGCCGCGG  >  NC_014034/2555842‑2555941                                                                                                                                                                                                                 CTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGC                                                                                                    <  2:4313328/101‑1 (MQ=1)        TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                 >  1:2860669/1‑101 (MQ=1)            CCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCC                                                                                             <  1:1616295/101‑1 (MQ=1)             CCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCC                                                                                            <  2:4474997/101‑1 (MQ=1)               AGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCG                                                                                          >  1:1219805/1‑101 (MQ=1)                  gGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCC                                                                                       <  2:257759/100‑1 (MQ=14)                  gGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCC                                                                                       <  1:4283775/100‑1 (MQ=14)                  TGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCC                                                                                       >  2:1012423/1‑101 (MQ=31)                   GAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCG                                                                                      >  1:3239118/1‑101 (MQ=32)                   GAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCG                                                                                      <  1:3758313/101‑1 (MQ=32)                   GAAAGCCGCCCGGGCCGCAGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCG                                                                                      <  2:3074750/101‑1 (MQ=17)                    AAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGG                                                                                     >  1:2518352/1‑101 (MQ=32)                    AAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGG                                                                                     >  1:2875266/1‑101 (MQ=32)                     AAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGG                                                                                    >  1:3718135/1‑101 (MQ=32)                           CCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCG                                                                              <  2:2632105/101‑1 (MQ=32)                             CGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCG                                                                            >  1:2105808/1‑101 (MQ=32)                              GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                           >  2:4589288/1‑101 (MQ=32)                              GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                           >  1:766329/1‑101 (MQ=32)                              GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCACCCGCCCCGGTCGGCGCGC                                                                           >  1:1314519/1‑101 (MQ=255)                               GGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC                                                                          >  2:2555147/1‑101 (MQ=32)                                GCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCt                                                                         >  1:823506/1‑100 (MQ=14)                                GCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCt                                                                         <  2:1193029/101‑2 (MQ=14)                                  CGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCtgc                                                                       >  1:2558375/1‑98 (MQ=1)                                   GCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCtgcg                                                                      >  2:3998440/1‑97 (MQ=11)                                       GTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGC                                                                 >  1:3774643/1‑101 (MQ=21)                                            CCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAAT                                                            >  1:1735224/1‑101 (MQ=21)                                              GGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAATtc                                                          >  2:1025760/1‑99 (MQ=37)                                              GGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAATtc                                                          >  2:1252564/1‑99 (MQ=37)                                              GGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAATtc                                                          >  1:3534579/1‑99 (MQ=37)                                               GGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCC.TGCGCGGCGAAATtcc                                                         >  1:4580844/1‑98 (MQ=38)                                                                                             gggacGCGGGGGCGAAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCC            <  1:2611469/96‑1 (MQ=255)                                                                                              ggcggaGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCCC           <  2:1888573/95‑1 (MQ=255)                                                                                                                                                                                                             GGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG....................................................................................................  <  NC_014034/2330281‑2330179 ....................................................................................................GGGGCGGAGCCCCCGCCCGGGTCGCCGCGCCAGGCGCGGCGAAATCAGGCCACGCCGCGCCCGATCAGCTCTGCCGCGATCGCCGCATAGGCCCCGGCCGCGG  >  NC_014034/2555842‑2555941 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 27 ≤  ATCG  < 33 ≤  ATCG  < 39 ≤  ATCG