New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	2468748 =	32 (0.800)	3 (0.080)	3/326	NT	9.2%	coding (175/564 nt)	PP_2162	putative phosphonoacetaldehyde phosphonohydrolase‑related protein
	?	AE015451	2468891 =	28 (0.720)					coding (32/564 nt)	PP_2162	putative phosphonoacetaldehyde phosphonohydrolase‑related protein

CGCAGAAGTGCGGTCGCATAACGGGCTGCAGGCGGCCAGGCCTACCGTCCACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGAAGGCGGGCGCAGTGTCCATGGCAACTTCCCCCAAATGGTTCGAAGGCTATGCGTTGATTGTTACCGTCCTGTGACATCGC  >  AE015451/2468521‑2468983                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                            cgcAGAAGTGCGGTCGCATAACGGGCTGCAGGCGGCCAGGCCTACCGTCCACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCttt                                                                                                                                                                                                                                     <  1:18362/236‑1 (MQ=255)         tGCGGTCGCATAACGGGCTGCAGGCGGCCAGGCCTACCGTCCACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTa                                                                                                                                                                                                                             >  1:432315/1‑236 (MQ=255)                   tAACGGGCTGCAGGCGGCCAGGCCTACCGTCCACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTc                                                                                                                                                                                                                     <  2:637016/234‑1 (MQ=255)                   tAACGGGCGGCAGGCGGCCAGGCCTACCGTCCACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCgg                                                                                                                                                                                                                               <  1:59402/224‑1 (MQ=255)                                                 ccACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGa                                                                                                                                                                                      <  1:364215/235‑1 (MQ=255)                                                      aGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAgg                                                                                                                                                                                >  1:292991/1‑236 (MQ=255)                                                            cGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTg                                                                                                                                                                             <  2:432314/233‑1 (MQ=255)                                                                aaGGCCAGACTGCAGCAGGCGCGGGTCGCCGATGAACAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCttt                                                                                                                                                                                                                                     <  1:195670/173‑1 (MQ=255)                                                                  ggCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGcgcg                                                                                                                                                                                                                                >  2:640539/1‑176 (MQ=255)                                                                           gcagcaGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCt                                                                                                                                                                                                                                       >  2:151831/1‑160 (MQ=255)                                                                           gcagcaGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCCCGGCACTTGGCGCTGACGCAGGCTGGCAAGGGt                                                                                                                                                                     >  1:503649/1‑226 (MQ=255)                                                                           gcagcaGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCAGCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCATCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATGCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAgg                                                                                                                                                              >  2:696020/1‑233 (MQ=255)                                                                               cagGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGgcgc                                                                                                                                                          >  2:666326/1‑233 (MQ=255)                                                                                  gcgcGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCggg                                                                                                                                                      >  2:512140/1‑234 (MQ=255)                                                                                       ggTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCg                                                                                                                                                  <  2:292990/233‑1 (MQ=255)                                                                                             cccTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTg                                                                                                                                                                                             <  2:346078/182‑1 (MQ=255)                                                                                                tGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGACCCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTg                                                                                                                                        <  1:496937/235‑1 (MQ=255)                                                                                                        ccGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTg                                                                                                                                        <  1:193023/225‑1 (MQ=255)                                                                                                                    aGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACg                                                                                                                                                                                    <  2:672136/170‑1 (MQ=255)                                                                                                                      gcgcTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAgg                                                                                                                 <  1:289169/235‑1 (MQ=255)                                                                                                                            gctGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCttt                                                                                                                                                                                                                                     <  2:684356/113‑1 (MQ=255)                                                                                                                              tGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGGATTGAGGTCATCCAACCAAATGCCCGGCa                                                                                                                                                                                                 >  2:172420/1‑147 (MQ=255)                                                                                                                                    gcgcCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAAcc                                                                                                   <  1:666327/235‑1 (MQ=255)                                                                                                                                          gatgtcacaggacggtaacaatcaacgcatagccttcgaaccatttgggggaagttgccatggacactgcgcccgccttcactgctgtactGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACg                                                                                                                                                                                    >  2:600301‑M1/92‑149 (MQ=255)                                                                                                                                          gatgtcacaggacggtaacaatcaacgcatagccttcgaaccatttgggggaagttgccatggacactgcgcccgccttcactgctgtactGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACg                                                                                                                                                                                    <  1:600302‑M1/58‑1 (MQ=255)                                                                                                                                             gTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCt                                                                                                                                                                                        >  2:125224/1‑141 (MQ=255)                                                                                                                                              tgcctgccAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGAt                                                                                                                                            <  2:547299/184‑1 (MQ=255)                                                                                                                                                  tgccAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGt                                                                                    <  1:606373/236‑1 (MQ=255)                                                                                                                                                             gTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGAAggcgggc                                                                          <  1:484464/235‑1 (MQ=255)                                                                                                                                                               tCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGAAggcgggc                                                                          <  2:323438/233‑1 (MQ=255)                                                                                                                                                                 ggCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCAt                                                                                                                                  <  2:423620/175‑1 (MQ=255)                                                                                                                                                                                      ttGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATCGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGcccttgcc                                                                                                                                                   <  2:226686/137‑7 (MQ=255)                                                                                                                                                                                            cGCATGCCCTGGCAGCCAGGCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGAAGGCGGGCGCAGTGTCCATGGCAACTTCCCCCAAATGGt                                           <  1:512099/236‑1 (MQ=255)                                                                                                                                                                                                  gccatggaccctgcgtccgccttcactgctgtactGTTCGGTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGc                                                                                                                           >  2:448243‑M1/36‑150 (MQ=255)                                                                                                                                                                                                              gTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGa                                                                                  <  1:338446/179‑1 (MQ=255)                                                                                                                                                                                                                                     GTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGAAGGCGGGCGCAGTGTCCATGGCAACTTCCCCCAAATGGTTCGAAGGCTATGCGTTGATTGTTACCGTCCTGTGACATCGc  >  1:110153‑M1/1‑236 (MQ=255)                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                            CGCAGAAGTGCGGTCGCATAACGGGCTGCAGGCGGCCAGGCCTACCGTCCACAAGCCGGCGTTAAGGCCAGACTGCAGCAGGCGCGGGTCGCCGCTGACCAATACGCAGCCATCCAGGCGCTCGCTGTCCAGCGCCATCAGTGCCTGCCAGCAAGCGTTCGGCGCCGGCCAGCGCACGCCATTGA‑CCGCATGCCCTGGCAGCCAGTCGGGCAGCACATGGGCCAGGCGTTCGCTTTGCGCGGTATTGAGGTCATCCAACCAAATGCACGGCACTTGGCGCTGACGCAGGCTGGCAAGGGTGCCCAGGGCGCCGGGGGCGGGTGATGGTGCGCCATGGGTAGCCTGCACCAGGCAGCCGCGCAAACCGAACAGTACAGCAGTGAAGGCGGGCGCAGTGTCCATGGCAACTTCCCCCAAATGGTTCGAAGGCTATGCGTTGATTGTTACCGTCCTGTGACATCGC  >  AE015451/2468521‑2468983

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ 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.