New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2014974	32 (0.890)	5 (0.140)	5/272	4.3	11.9%	coding (95/996 nt)	fliG	flagellar motor switching and energizing component
	?	NC_000913_3_pae_tpiA	= 2014992	43 (1.230)					coding (113/996 nt)	fliG	flagellar motor switching and energizing component
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTCATTCGCCAGTGGATAAATAACGATCATGAGTAACCTGACAGGCACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTGGGTGAA  >  NC_000913_3_pae_tpiA/2014852‑2015140                                                                                                                                             |                                                                                                                                                     gTCATTCGCCAGTGGATAAATAACGATCATGAGTAACCTGACAGGCACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCaa                                                                                                                                              >  1:239379/1‑149 (MQ=255)    aTTCGCCAGAGGATAAATAACGATCATGAGTAACCTGACAGGCACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCATCGTGAAGTACAAACCCTGAGCGCTGCAATgg                                                                                                                                           <  2:40095/149‑1 (MQ=255)        gCCAGTGGATAAATAACCATCATGAGTACCCTGACCGGCACCGATAAAAGCGTCATCCTGCTGATGCAGATTGGCGAAGAACCCCAGACGGGTGGGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGaa                                                                                                                                       <  1:310668/149‑1 (MQ=255)             tGGATAAATAACGATCATGAGTAACCTGACAGGCACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGACCGTCa                                                                                                                                  <  2:430652/149‑1 (MQ=255)               gATAAATAACGATCATGAGTAACCTGACAGGCACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGGGTTCGAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTCCAATGGCGAGCGTCCCg                                                                                                                                >  2:321446/1‑149 (MQ=255)                                              cACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGc                                                                                                 <  1:250500/149‑1 (MQ=255)                                              cACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCAAGCAGATCTCCAACAAGCAGCTAAcccagcagc                                                                                                 >  2:306167/1‑142 (MQ=255)                                                  gATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTACCCGATGTGCTGGc                                                                                             >  1:8397/1‑149 (MQ=255)                                                       aaGCGTCGTTCTGCTGATGACCGTTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGt                                                                                        >  2:396719/1‑149 (MQ=255)                                                          cGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGtt                                                                                       >  1:31381/1‑147 (MQ=255)                                                          cGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGtt                                                                                       <  2:31381/147‑1 (MQ=255)                                                          cGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTg                                                                                     <  1:81841/149‑1 (MQ=255)                                                           gTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGa                                                                                    <  1:173428/149‑1 (MQ=255)                                                           gTCATCCTGCAGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGa                                                                                    <  2:476968/149‑1 (MQ=255)                                                            tCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAg                                                                                   >  1:96120/1‑149 (MQ=255)                                                            tCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAg                                                                                   <  2:323198/149‑1 (MQ=255)                                                                 ctgctgATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCGGCTAACCGATGTGCTGGCGGAGGTTGAGCaaga                                                                              >  2:384982/1‑149 (MQ=255)                                                                              ttGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGttt                                                                 <  2:96120/149‑1 (MQ=255)                                                                                          gggCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAat                                                     >  1:29615/1‑149 (MQ=255)                                                                                                 agagGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACg                                              >  1:488200/1‑149 (MQ=255)                                                                                                     gtgtTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCCGGCGTACCTTTAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCaa                                          >  2:295365/1‑149 (MQ=255)                                                                                                       gtTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGAt                                                                                                     >  2:578661/1‑88 (MQ=255)                                                                                                       gtTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGAt                                                                                                     <  1:578661/88‑1 (MQ=255)                                                                                                           aaGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTa                                    >  1:84786/1‑149 (MQ=255)                                                                                                            aGCACCTGCCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTAt                                   <  1:519059/149‑1 (MQ=255)                                                                                                              cACCTCTCCCGGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCt                                 >  1:235929/1‑149 (MQ=255)                                                                                                                  tctcCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTgcgc                             >  2:321145/1‑149 (MQ=255)                                                                                                                   ctcCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACTCCAACGATTATCTGCGCt                            >  2:436173/1‑149 (MQ=255)                                                                                                                           gTGAAGTACAAGACCGGAGCGCTGCAATGGCGAACGTCACGCAGATCGCCAACTAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTg                    <  1:60044/149‑1 (MQ=255)                                                                                                                           gTGAAGTACAAACCCTGCGCGCTGCAATGGCTTACGTTACGCATATCTCCAACACGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAATCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGTGCTAGGTATTg                    <  2:303021/149‑1 (MQ=255)                                                                                                                           gTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTg                    <  2:79257/149‑1 (MQ=255)                                                                                                                              aaGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGa                                                                                    <  2:258333/82‑1 (MQ=255)                                                                                                                              aaGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGa                                                                                    >  1:258333/1‑82 (MQ=255)                                                                                                                                gTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCaa               >  2:370561/1‑149 (MQ=255)                                                                                                                                   cAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGc            >  2:409914/1‑149 (MQ=255)                                                                                                                                    aaaCCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCATCGCCACCGATAATCTGGACTCGGTATTGGTCACAGct           >  1:398838/1‑149 (MQ=255)                                                                                                                                    aaaCCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGct           >  1:129783/1‑149 (MQ=255)                                                                                                                                    aaaCCCTGAGCGCTGCAATGCCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGct           >  1:617673/1‑149 (MQ=255)                                                                                                                                        ccTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTgg       <  1:409914/149‑1 (MQ=255)                                                                                                                                         cTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTggg      >  2:446708/1‑149 (MQ=255)                                                                                                                                          tGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTGGGt     <  1:446708/149‑1 (MQ=255)                                                                                                                                             gcgcTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTGGGTgaa  <  1:295365/149‑1 (MQ=255)                                                                                                                                             gcgcTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTGGGTgaa  <  2:84786/149‑1 (MQ=255)                                                                                                                                             |                                                                                                                                                     GTCATTCGCCAGTGGATAAATAACGATCATGAGTAACCTGACAGGCACCGATAAAAGCGTCATCCTGCTGATGACCATTGGCGAAGACCGGGCGGCAGAGGTGTTCAAGCACCTCTCCCAGCGTGAAGTACAAACCCTGAGCGCTGCAATGGCGAACGTCACGCAGATCTCCAACAAGCAGCTAACCGATGTGCTGGCGGAGTTTGAGCAAGAAGCTGAACAGTTTGCCGCACTGAATATCAACGCCAACGATTATCTGCGCTCGGTATTGGTCAAAGCTCTGGGTGAA  >  NC_000913_3_pae_tpiA/2014852‑2015140

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.