New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1456346 =	40 (1.040)	14 (0.390)	10/290	NT	28.0%	coding (1197/1206 nt)	paaJ	3‑oxoadipyl‑CoA/3‑oxo‑5,6‑dehydrosuberyl‑CoA thiolase
	?	CP009273	1456480 =	35 (0.990)					coding (99/1314 nt)	paaK	phenylacetyl‑CoA ligase

GCAAAGGTGTCAAAGGGATAGTTGTCGCGCAGATCCTGTTTGGTGGTACAGGGAAATTTACGCAGGTCTGAAAGTTCCCTGAAATCATCAGGATGTACGCCTGCTGCGTCGAATTTGCGCCGATACATCGGCACATTTTCATACGCGTGTTTGAGCGTCCATTTCAGACGCTGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP009273/1456623‑1456346 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gctcaaacacgcGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTGCGCGACAACTATCCCTTTGACACCTTTGCCGTGCCAATGGAACAAGT  >  CP009273/1456480‑1456641                                                                                                                                                                                                                                                                                                                                                                                                                                                          GCAAAGGTGTCAAAGGGGTAGTTGTCGGGCAGATCCTGTTTGGTGGTAAAGGGAAATTTACGCAGGTCTGAAAGTTCCCTGAAATCATCAGGATGTACGCCTGCTGCGTCGAATTTGCGCCGATACATCGGCACATTTTCATACGCGTGTTTGAGCGTCCATTTCAGACGCTGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACA                                                                                                                                                                       <  2:649499/275‑1                                                                                                                                                                      AGACGCTGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGAAGCAGGCGTACATCCTGATGATTTCA                                                                                                   >  2:100748/1‑178                                                                                                                                                                       GACGCTGTGTTTGCAACGCGTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTGCGCGACAACTATCCCTTTGACACCTTTGCCGTGCCAATGTAACAAGT  >  1:568877/1‑274                                                                                                                                                                        ACGCTGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCA                                                                                                                                                                           >  2:526231/1‑104                                                                                                                                                                          GCTGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGA                                                                                               <  1:100749/178‑1                                                                                                                                                                            TGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACA                                                                                                                                                                       <  1:526239/104‑1                                                                                                                                                                                                     CAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTG                                                 >  2:327038/1‑197                                                                                                                                                                                                     CAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCT                                                  >  1:34911/1‑196                                                                                                                                                                                                     CAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTA                                                                                                                   >  2:54676/1‑131                                                                                                                                                                                                     CAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGC                                                                                                                             >  2:489695/1‑121                                                                                                                                                                                                       ACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTG                                                 >  2:582327/1‑195                                                                                                                                                                                                       ACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGAC                                                                                                                               >  2:601832/1‑117                                                                                                                                                                                                         AGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGGAGATATATCGGCGCAAATTCGACGCAGCA                                                                                                                         <  1:489702/121‑1                                                                                                                                                                                                         AGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATC                                                                                                               <  1:54676/131‑1                                                                                                                                                                                                         AGACGCGGTTTCAATCGGGTCAAGCGTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTGCGC                                              <  2:34911/196‑1                                                                                                                                                                                                           ACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTGCGCG                                             <  1:582336/195‑1                                                                                                                                                                                                           ACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAG                                                                                                                           <  1:601841/117‑1                                                                                                                                                                                                                                                                             TCAAACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGA                                                                                                        >  2:491143/1‑70                                                                                                                                                                                                                                                                                 ACACGCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCCGCCGGCGTTCATCCTGATGATTTC                                                                                                    <  1:491150/70‑1                                                                                                                                                                                                                                                                                     GCGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCT                                                  >  1:472532/1‑116                                                                                                                                                                                                                                                                                                                                                                                                                                                          GCAAAGGTGTCAAAGGGATAGTTGTCGCGCAGATCCTGTTTGGTGGTACAGGGAAATTTACGCAGGTCTGAAAGTTCCCTGAAATCATCAGGATGTACGCCTGCTGCGTCGAATTTGCGCCGATACATCGGCACATTTTCATACGCGTGTTTGAGCGTCCATTTCAGACGCTGTGTTTGCAACGCCTGTAACTCATCAACAGACGCGGTTTCAATCGGGTCAAGCTTTGTATTGGTTATCATTGTAGGGTACTCGCAGGTTGATATGCTCAAACACGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP009273/1456623‑1456346 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gctcaaacacgcGTATGAAAATGTGCCGATGTATCGGCGCAAATTCGACGCAGCAGGCGTACATCCTGATGATTTCAGGGAACTTTCAGACCTGCGTAAATTTCCCTGTACCACCAAACAGGATCTGCGCGACAACTATCCCTTTGACACCTTTGCCGTGCCAATGGAACAAGT  >  CP009273/1456480‑1456641

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ 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.