New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2235628	30 (0.960)	4 (0.130)	4/272	3.9	11.3%	coding (364/1236 nt)	preA	dihydropyrimidine dehydrogenase, NADH‑dependent, subunit C
	?	NC_000913_3_pae_tpiA	= 2235642	34 (1.140)					coding (378/1236 nt)	preA	dihydropyrimidine dehydrogenase, NADH‑dependent, subunit C
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AACATCCGTTGGAAGAGAATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTGAAACGGGGTTCCACGCTGCCAATGCTGGCGAAGA  >  NC_000913_3_pae_tpiA/2235509‑2235787                                                                                                                                      |                                                                                                                                                  aaCATCCGTTGGAAGAGAATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATc                                                                                                                                    >  1:46969/1‑149 (MQ=255)     tCCGTTGGAAGAGAATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAgt                                                                                                                                <  2:283157/149‑1 (MQ=255)     tCCGTTGGAAGAGAATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAgt                                                                                                                                <  1:449638/149‑1 (MQ=255)        gTTGGAAGAGAATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAgtgtc                                                                                                                             >  2:162898/1‑148 (MQ=255)               gagaATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTtctc                                                                                                                      <  1:280421/149‑1 (MQ=255)               gagaATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTtctc                                                                                                                      <  1:463578/149‑1 (MQ=255)               gagaATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAAGGTAACTtctc                                                                                                                      >  1:21487/1‑149 (MQ=255)                                        tGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGCGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGCTATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCg                                                                                             >  1:102551/1‑149 (MQ=255)                                         gaaggaagATTACCGGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGa                                                                                            >  1:475324/1‑149 (MQ=255)                                                gATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAg                                                                                     <  1:372302/149‑1 (MQ=255)                                                gATTACCCGGACAAAGTATTAATAGCATCGAGCATGAGGAAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGCCCACAAATGACTTCTCATGCGATGGTTat                                                                                     >  2:63657/1‑148 (MQ=255)                                                 aTTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCTCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGc                                                                                    <  2:475324/149‑1 (MQ=255)                                                 aTTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGc                                                                                    <  1:255540/149‑1 (MQ=255)                                                     cccGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATg                                                                                >  1:444028/1‑149 (MQ=255)                                                         gACAAAGTATTGATCGCTCCGATCATGGGGGAAAATGCGCAGTAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCCAATGACTTCTCATGCGATGGGTAGCGATGTCgg                                                                            <  1:251749/149‑1 (MQ=255)                                                              aggaTTGGTCGCTTCGATCAAGGGGGGAAATTAGCAGCAATGGGAGGAGCCGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATTATCGAGTGTAACTTCGCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCaaa                                                                       <  2:273611/146‑1 (MQ=255)                                                                     aTCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCGTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGa                                                                <  1:359620/149‑1 (MQ=255)                                                                     aTCGCTTCGATCAAGGGCGAAAAAGAGCAGCAACGGGCGATGCTGGCGCGCCGTGTGCAAGAATCTGGCGCGGAGATGAGCGAGTGGAACTTCTCCTGTCCGCAAATGACTTCGCATGCGATGGGTAGCGATGTCGGGCAAAGCCCggc                                                                >  2:325604/1‑148 (MQ=255)                                                                          ttCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGa                                                                                                                                  >  1:165082/1‑78 (MQ=255)                                                                          ttCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGa                                                                                                                                  <  2:165082/78‑1 (MQ=255)                                                                               tCATGGGGGAAAATGAGCAGCCATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGaa                                                      >  2:175433/1‑149 (MQ=255)                                                                                cATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGaaa                                                     >  1:397196/1‑149 (MQ=255)                                                                                   gggggAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAat                                                  <  1:426885/149‑1 (MQ=255)                                                                                              ggcaggaATGGGGGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCa                                       <  1:32400/148‑1 (MQ=255)                                                                                                  gcaATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTgc                                   >  1:46519/1‑148 (MQ=255)                                                                                                      tGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATg                                                                                               <  1:18794/85‑1 (MQ=255)                                                                                                      tGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATg                                                                                               >  2:18794/1‑85 (MQ=255)                                                                                                              gCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTGAAACGGGGTTCCa                       <  1:155544/149‑1 (MQ=255)                                                                                                                        cTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTGAAACGGGGTTCCACGCTGCCAAt             >  1:244176/1‑149 (MQ=255)                                                                                                                            tGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGGCAAAAGGGGTTGCACGCTGCCAATGCTg         >  1:454854/1‑149 (MQ=255)                                                                                                                              cAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTGAAACGGGGTTCCACGCTGCCAATGCTGGc       >  1:59110/1‑149 (MQ=255)                                                                                                                              cAAGAAGCTGGCGCGGATATGAGCGAGTGTAACTTCGCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTCGAAAAATATTGTCGGGCCGCGAACCGGCGTGCCACGCTCCCAATGCTGGc       <  2:326251/149‑1 (MQ=255)                                                                                                                                 gaagCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTAAAACGGGGTTCCACGCTGCCAATGCTGGCGaa    >  2:304455/1‑149 (MQ=255)                                                                                                                                   agCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTGAAACGGGGTTCCACGCTGCCAATGCTGGCGAAGa  <  1:175433/149‑1 (MQ=255)                                                                                                                                      |                                                                                                                                                  AACATCCGTTGGAAGAGAATCTGGCCGCCCTGCGTCGGCTGAAGGAAGATTACCCGGACAAAGTATTGATCGCTTCGATCATGGGGGAAAATGAGCAGCAATGGGAGGAGCTGGCGCGCCTGGTGCAAGAAGCTGGCGCGGATATGATCGAGTGTAACTTCTCCTGTCCGCAAATGACTTCTCATGCGATGGGTAGCGATGTCGGGCAAAGCCCGGAGCTGGTAGAAAAATATTGTCGGGCAGTGAAACGGGGTTCCACGCTGCCAATGCTGGCGAAGA  >  NC_000913_3_pae_tpiA/2235509‑2235787

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.