New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_014034	2330179 =	65 (0.190)	59 (0.170)	18/190	26.8	0.30	intergenic (+154/+158)	RCAP_rcc02161/mrcA	hypothetical protein/penicillin‑binding protein 1A
	?	NC_014034	3276378 =	206 (0.580)					intergenic (‑130/+119)	RCAP_rcc03082/RCAP_rcc03083	lipoprotein/membrane bound YbgT‑like protein
Rejected: Position hash score below cutoff.

CGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG.....................................................................................................  <  NC_014034/2330283‑2330179 ....................................................................................................CGGGGGCGGAGCCCCCG.GCGGGTCGCCGCGCGGCCGCGCGGCGAAACAAAGGACCGACCGGGCAGCCCCCCGGTCGGCCAGTGAACCCGAAACGCGAAGGGACGC  >  NC_014034/3276378‑3276477                                                                                                                                                                                                                     TCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGG                                                                                                      >  1:5421380/1‑101 (MQ=1)       CTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGC                                                                                                     >  2:6820494/1‑101 (MQ=1)       CTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGC                                                                                                     >  1:2605348/1‑101 (MQ=1)       CTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGCCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGC                                                                                                     <  1:6435370/101‑1 (MQ=1)        TTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCG                                                                                                    <  2:535469/101‑1 (MQ=1)        TTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCG                                                                                                    >  1:3955461/1‑101 (MQ=1)        TTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCG                                                                                                    >  1:2781970/1‑101 (MQ=1)        TTTGGCCCCAGGTGAAAACCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCG                                                                                                    >  2:3757785/1‑101 (MQ=1)         TTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGNCGGGGGTGCGGGGGCGG                                                                                                   >  2:1824999/1‑101 (MQ=1)         TTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGG                                                                                                   <  1:317458/101‑1 (MQ=1)         TTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGG                                                                                                   >  2:3209959/1‑101 (MQ=1)          gGGCCCCAGGTAAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  <  1:3577230/100‑1 (MQ=1)          TGGCGCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  <  2:3088632/101‑1 (MQ=1)          TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  <  2:3577990/101‑1 (MQ=1)          TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  >  1:2405457/1‑101 (MQ=1)          TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  >  1:869739/1‑101 (MQ=1)          TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  <  2:6665029/101‑1 (MQ=1)          TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  <  1:5169302/101‑1 (MQ=1)          TGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGA                                                                                                  >  2:5328451/1‑101 (MQ=1)           GGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAG                                                                                                 <  1:6053257/101‑1 (MQ=1)           GGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGCGCGGGGGCGGAG                                                                                                 >  1:6558912/1‑101 (MQ=1)            GCCCCAGGTGAAGGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGC                                                                                                <  1:2311046/101‑1 (MQ=1)            GCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGC                                                                                                >  1:6913031/1‑101 (MQ=1)            GCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGC                                                                                                <  2:497259/101‑1 (MQ=1)            GCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGC                                                                                                <  2:6986451/101‑1 (MQ=1)            GCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGC                                                                                                <  1:2660593/101‑1 (MQ=1)             CCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCGCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCC                                                                                               <  2:1232489/101‑1 (MQ=1)             CCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCC                                                                                               <  2:5646517/101‑1 (MQ=1)             CCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCC                                                                                               <  1:2633850/101‑1 (MQ=1)               CCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCC                                                                                             <  2:1465193/101‑1 (MQ=1)               CCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGCGCGGGGGCGGAGCCCC                                                                                             >  1:723002/1‑101 (MQ=1)                 AGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCG                                                                                           <  1:6598021/101‑1 (MQ=1)                 AGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCG                                                                                           <  1:3194736/101‑1 (MQ=1)                  GGTGAAAGCCGCCCGGGCCGCCGGTTAACCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGc                                                                                          <  2:2372819/101‑2 (MQ=2)                   GTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcc                                                                                         >  1:6015718/1‑99 (MQ=31)                    gGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGccc                                                                                        <  2:5082060/100‑4 (MQ=17)                    TGAAAGCCGCCCGGGCCGCCCGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGAAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGccc                                                                                        >  1:6386830/1‑98 (MQ=12)                     GAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccg                                                                                       >  1:1541391/1‑97 (MQ=32)                     GAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccg                                                                                       >  1:2011438/1‑97 (MQ=32)                     GAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccg                                                                                       >  2:6689472/1‑97 (MQ=32)                     GAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccg                                                                                       >  2:1060216/1‑97 (MQ=32)                      AAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgg                                                                                      <  2:3049431/101‑6 (MQ=32)                      AAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgg                                                                                      >  1:3220374/1‑96 (MQ=32)                      AAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgg                                                                                      >  1:5173830/1‑96 (MQ=32)                      AAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgg                                                                                      >  1:383490/1‑96 (MQ=32)                       AAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccggg                                                                                     >  1:4405457/1‑95 (MQ=32)                       AAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccggg                                                                                     >  2:2433802/1‑95 (MQ=32)                        AGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgggt                                                                                    >  2:2671407/1‑94 (MQ=32)                        AGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgggg                                                                                    >  2:5734363/1‑94 (MQ=17)                        AGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgggc                                                                                    >  1:4774219/1‑94 (MQ=17)                         GCCGCCCGGGCCGCCGGGGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGcccgggtc                                                                                   <  1:324752/101‑9 (MQ=17)                          CCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCG                                                                                  >  1:1305216/1‑101 (MQ=32)                            cCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCC                                                                                <  2:4688495/100‑1 (MQ=17)                            GCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCC                                                                                <  1:3696404/101‑1 (MQ=32)                              CCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGC                                                                              <  1:6713097/101‑1 (MQ=32)                                GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                            >  2:3213501/1‑101 (MQ=32)                                GGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGC                                                                            >  1:3282297/1‑101 (MQ=32)                                  GCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGGGCGGAGCCCCCGCCCGGGTCGCCGCGCct                                                                          >  2:6053914/1‑99 (MQ=14)                                                                                           ctggtGGGTGCGGGGGCGGAGCCCCCG.GCGGGTCGCCGCGCGGCCGCGCGGCGAAACAAAGGACCGACCGGGCAGCCCCCCGGTCGGCCAGTGAACCCGAA                <  2:5714168/96‑1 (MQ=1)                                                                                                                                                                                                                CGGGATCTTTGGCCCCAGGTGAAAGCCGCCCGGGCCGCCGGTGATCCGGGGCCCCGCATGCGCGCCCCGGCTTTTTCTTGGCGCAAATACGCCGGGGGTGCGGGG.....................................................................................................  <  NC_014034/2330283‑2330179 ....................................................................................................CGGGGGCGGAGCCCCCG.GCGGGTCGCCGCGCGGCCGCGCGGCGAAACAAAGGACCGACCGGGCAGCCCCCCGGTCGGCCAGTGAACCCGAAACGCGAAGGGACGC  >  NC_014034/3276378‑3276477 Base quality scores:  ATCG  < 3 ≤  ATCG  < 20 ≤  ATCG  < 29 ≤  ATCG  < 34 ≤  ATCG  < 40 ≤  ATCG