New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	2295775 =	36 (0.610)	4 (0.080)	4/214	NT	13.0%	intergenic (+21/+112)	PP_5496/PP_2023	hypothetical protein/glutathione S‑transferase family protein
	?	NC_002947	2295860 =	24 (0.500)					intergenic (+106/+27)	PP_5496/PP_2023	hypothetical protein/glutathione S‑transferase family protein

CAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAACTGGCGCA  >  NC_002947/2295715‑2296005                                                                                                                                                   |                                                                                                                                                   cAATTTCAATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCCGGCAATCCCGCTACCCCACCGa                                                                                                                                                 >  1:235400/1‑149 (MQ=37)                    aGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGAt                                                                                                                                <  3:301444/147‑1 (MQ=255)                        gCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTaa                                                                                                                          >  6:319358/1‑149 (MQ=255)                          aaGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCCCTTAGCGGGCCTTCCCCCTACCACACCGACCCCTGTGCCGCCCGATGTTTTAt                                                                                                                         >  1:333828/1‑148 (MQ=37)                                 accacTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGAc                                                                                                                 >  1:29107/1‑149 (MQ=255)                                    acTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCAt                                                                                                              >  6:116285/1‑149 (MQ=255)                                      tGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTAGCGGGCCTGCCCGCTACCACACGGACCCCTGTGCAGCGCGATGTTTTATCAGCGGAACATGa                                                                                                            >  1:292001/1‑149 (MQ=37)                                             gCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGAtt                                                                                                          <  2:47152/144‑1 (MQ=255)                                             gCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCtt                                                                                                     <  2:29107/149‑1 (MQ=255)                                             gCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCATCGCGGGCATGCCCCCTCCCACACGGACCCAAGTGAAGCCCGAAGTTTAATCAGCGGACCATGAATGccgt                                                                                                     >  6:228008/1‑147 (MQ=37)                                                  tgtgAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCCCACGGACCCCTGTGCAGCCCGATGGTTAATCAGCGGACCATGATTGCCTTGaa                                                                                                  >  8:213891/1‑147 (MQ=255)                                                      aGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTAGCGGGCATGCCCGCTCCCACACGGACCCATGTACAGCCCGATGTTTAAt                                                                                                                         >  6:89664/1‑120 (MQ=255)                                                       ggTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTcc                                                                                           <  5:116285/149‑1 (MQ=255)                                                        gTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTcc                                                                                           >  7:230435/1‑148 (MQ=255)                                                           cTTGTGGGAGCGGGCATGCCCGCGAAGCACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCGTCGCGGGCCTGCCCGCTCCCCCACGGCCCCATGTGCCGCCCGATGTTTTATCAGCGGGCCATGATTGGCGTGAACAGCGCCg                                                                                          >  1:191758/1‑147 (MQ=25)                                                                 GGAGCGGGCATGCCCGCGAA‑CATCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCACCCACACGGACCCATGTGCAGCCCGATGTTTACTCAGCGGACCAAGATTGCCGTGAACCGCTCCGAagcccgcc                                                                                 <  7:56745‑M1/149‑1 (MQ=255)                                                                    gggggCAGGCCCGCTAA‑CACGGGCAGCGCGGGTGCCAGCCCCCCGGGGCCCCGCTGCGCGGGAATGCCCCCGCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCAcc                                                                              <  5:249435/147‑1 (MQ=255)                                                                       gggcatgcccgcgaagcgggcaccgcggtggatggcaccggctctgccggtgttcgcgggcatgcccgctcccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCAcccc                                                                            >  6:174005‑M2/77‑149 (MQ=255)                                                                        GCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTc                                                                          >  1:326625‑M1/1‑149 (MQ=255)                                                                          catgcccgcgaagcgggcaccgcggtggatggcaccggctctgccggtgttcgcgggcatgcccgctcccacaAGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCCCCCCTc                                                                          >  6:74984‑M2/74‑148 (MQ=255)                                                                           atgcccgcgaagcgggcaccgcggtggatggcaccggctctgccggtgttcgcgggcatgcccgctcccacaCGGCCCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTc                                                                          >  5:31467‑M2/73‑147 (MQ=255)                                                                              CCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCAtgtg                                                                                                                                         >  5:3172‑M1/1‑80 (MQ=255)                                                                              CCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCCCCGGCATGCCCCCTACCCCACGGACCCAagtg                                                                                                                                         <  6:3172‑M1/80‑1 (MQ=255)                                                                              CCGCGAA‑CACCGGCAGAGCCGGTGCAATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTccag‑cca                                                                   >  5:228008‑M1/1‑149 (MQ=255)                                                                                 CGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGaa                                                                                                  <  2:47438‑M1/116‑1 (MQ=255)                                                                                 CGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGaa                                                                                                  >  1:47438‑M1/1‑116 (MQ=255)                                                                                       acCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCAAGCCCGCTCCCACACGGACCCATGTGCAGCCCCATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCCAAGCCAGCCACCCCTCCAG‑CCAGCTCCGca                                                           >  2:72911/1‑149 (MQ=255)                                                                                            accgcggtggatggcaccggctctgccggtgttcgcgggcatgcccgctcccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACAcgc                                                      <  5:174005‑M2/94‑1 (MQ=255)                                                                                             agagCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCCCACGGCCCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACAcgcg                                                     >  7:267280/1‑149 (MQ=255)                                                                                             agagCCGGTGCCATCCACCGCGGTGCCCGCTTAGCCGGCATGCCCCCTACCACACGGACCCAAGTGCAGGCCGATAGTTAAAAAGCGGAACAAGAATGCCATGAACACCAACGAAAACACACACCCCTCCAC‑CCAGCTCCACaaacccc                                                     >  8:93539/1‑146 (MQ=255)                                                                                                cccGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCAGGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGAt                                                  <  3:78037/148‑1 (MQ=255)                                                                                                    gTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAgc                                              <  5:319358/149‑1 (MQ=255)                                                                                                            cACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCgg                                      <  4:26180/149‑1 (MQ=255)                                                                                                             aCCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCCGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCCCCCCTCCAG‑CCAGCTCCGCCCCCGCGGATAAGCCGCCGCGGc                                     >  4:342768/1‑149 (MQ=255)                                                                                                             aCCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCCGCTACGCCCACGCGGATAAGCCGCCTCgg                                      >  2:104505/1‑148 (MQ=255)                                                                                                             aCCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCgg                                      <  1:104505/148‑1 (MQ=255)                                                                                                                       ccGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGc                           <  8:267280/149‑1 (MQ=255)                                                                                                                        cGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCg                          >  8:51969/1‑149 (MQ=255)                                                                                                                          cTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCacac                                                        <  4:93508/117‑1 (MQ=255)                                                                                                                          cTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCacac                                                        >  3:93508/1‑117 (MQ=255)                                                                                                                           ttcgcgggcatgcccgctcccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGtt                       >  5:177973‑M2/25‑149 (MQ=255)                                                                                                                                   catgcccgctcccacaAGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCTGTTCGACCCCg               <  5:74984‑M2/133‑1 (MQ=255)                                                                                                                                      gcccgctcccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACAcgc                                                      <  2:161664‑M2/94‑1 (MQ=255)                                                                                                                                         cgctcccacaCGGACCCATGTGCAGCCCGATGGTTAATCAGCGGACCATGATGGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAAc         <  2:292001‑M2/139‑1 (MQ=255)                                                                                                                                         cgctcccacaCGGAACCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAAc         <  8:230435‑M2/139‑1 (MQ=255)                                                                                                                                         cgatcccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAAc         >  2:274218‑M2/11‑149 (MQ=255)                                                                                                                                             cccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAACTGgc     <  2:333828‑M2/143‑1 (MQ=255)                                                                                                                                              ccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAGCCCAGCTCCGCACACGCTGATAAGCCGCCTCGGCGa                                   <  1:241375‑M2/114‑1 (MQ=255)                                                                                                                                              ccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGa                                   >  2:241375‑M2/6‑118 (MQ=255)                                                                                                                                              ccacaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAACTgg      <  2:191758‑M2/142‑1 (MQ=255)                                                                                                                                                acaCGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAACTGGCGCa  >  3:180866‑M2/4‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                   CAATTTCCATGCGGCCCTGAGTGGCAAGCACCACCACTGATCTGGCTTGTGTGAGGTCCTTGTGGGAGCGGGCATGCCCGCGAA‑CACCGGCAGAGCCGGTGCCATCCACCGCGGTGCCCGCTTCGCGGGCATGCCCGCTCCCACACGGACCCATGTGCAGCCCGATGTTTAATCAGCGGACCATGATTGCCTTGAACAGCTCCGAAGCCAGCCACCCCTCCAG‑CCAGCTCCGCACACGCGGATAAGCCGCCTCGGCGAACCACTGCGGTTCGACCCCGGCAAACTGGCGCA  >  NC_002947/2295715‑2296005

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.