New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3173468 =	54 (1.030)	6 (0.120)	6/266	6.2	10.3%	intergenic (+12/+36)	ygiN/parE	quinol monooxygenase/DNA topoisomerase IV, subunit B
	?	NC_000913_3_pae_tpiA	3173493 =	54 (1.090)					intergenic (+37/+11)	ygiN/parE	quinol monooxygenase/DNA topoisomerase IV, subunit B
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGATGATTGAGCAGTGGGAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATCGCGTCAGTACGCTGATCGTCTT  >  NC_000913_3_pae_tpiA/3173323‑3173616                                                                                                                                                  |                                                                                                                                                     tgatgaTTGAGCAGTGGGAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGc                                                                                                                                                   >  1:653806/1‑149 (MQ=255)  gatgatTGAGCAGTGGGAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGAAAGGGGTTTAATCCTGCCTTGTTTTcc                                                                                                                                                  >  1:861945/1‑149 (MQ=255)                 ggAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCg                                                                                                                                   >  2:27787/1‑149 (MQ=255)                  gAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCgg                                                                                                                                  <  1:106806/149‑1 (MQ=255)                  gAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCgg                                                                                                                                  <  2:589494/149‑1 (MQ=255)                  gAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCgg                                                                                                                                  >  2:106806/1‑149 (MQ=255)                  gAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCgg                                                                                                                                  <  1:365095/149‑1 (MQ=255)                    aaGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTACTCTGCATCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGc                                                                                                                                <  1:647396/149‑1 (MQ=255)                        aTCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATg                                                                                                                            >  2:841701/1‑149 (MQ=255)                               agcTTGACGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTc                                                                                                                     <  1:182972/147‑1 (MQ=255)                                 cTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCGTTGTTTGCCCGGCCATCCTGACCGGGCAAGGTTATTTCCt                                                                                                                   >  1:489566/1‑149 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCGATCCTTACCGGGCAATGTTCTTTCCTTTAAAc                                                                                                             <  2:895833/149‑1 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTc                                                                                                                     >  1:317567/1‑141 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTc                                                                                                                     <  2:317567/141‑1 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTc                                                                                                                     <  2:318430/141‑1 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTc                                                                                                                     >  1:318430/1‑141 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCTTTTAAAc                                                                                                             >  1:49188/1‑149 (MQ=255)                                       gcgcATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAAc                                                                                                             <  2:797427/149‑1 (MQ=255)                                          cATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCCTCATCACCGGGCGATGTTCTTTCCTTTAAACCTc                                                                                                          >  2:658837/1‑149 (MQ=255)                                                cAAACCCCGCACATGAAGGCGTATAGCGCAGCCGTAAAAGGTGACCTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAAtctc                                                                                                    >  1:340515/1‑149 (MQ=255)                                                 aaaCCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGCCCGGCCGAGGTTCTTTCCTTTAAACCTCAATCTcc                                                                                                   <  2:668351/149‑1 (MQ=255)                                                  aaCCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCg                                                                                                  >  1:839913/1‑149 (MQ=255)                                                   aCCCCGCACATGGAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGc                                                                                                 <  2:443472/149‑1 (MQ=255)                                                    ccccGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGcc                                                                                                >  2:317285/1‑149 (MQ=255)                                                     cccGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCa                                                                                               >  1:34343/1‑149 (MQ=255)                                                      ccGCACATGAAGGCGTATAGCGAAGCCGTCAAAGGTGACGTGCTGGAGATGAATATCCGTCTTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGACAATGTTCTTTCCTTTAAACCTCAATCACCGCCac                                                                                              >  2:438229/1‑148 (MQ=255)                                                        gCATATGAAGGCTAATAGCGAAGCCTTAAAAGGTGACGTGCTGGAGATGAATATCTGTATTCTGCAGCCAGGGATTTAATCCTGCCTTTTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGt                                                                                            <  2:601265/149‑1 (MQ=255)                                                              gAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCtt                                                                                      <  1:317285/149‑1 (MQ=255)                                                                     tataGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTg                                                                               <  1:889196/149‑1 (MQ=255)                                                                          cGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAAcc                                                                          <  1:27787/149‑1 (MQ=255)                                                                                     aaGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGa                                                               <  2:313562/149‑1 (MQ=255)                                                                                      aGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGAt                                                              <  1:758965/149‑1 (MQ=255)                                                                                          gACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTc                                                          <  2:714824/149‑1 (MQ=255)                                                                                             gTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCCCACTCCCCCATGTCGCCTTTCTCTTGCAACCAGTTCCGGCGATCTTCCGa                                                       >  1:125756/1‑149 (MQ=255)                                                                                                cTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCg                                                    >  2:778018/1‑149 (MQ=255)                                                                                                   gagaTGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGa                                                               >  2:366484/1‑135 (MQ=255)                                                                                                   gagaTGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGa                                                               <  1:366484/135‑1 (MQ=255)                                                                                                          atatCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGGGATCTTCCGAGCTTTTCTTCGcc                                          >  1:369865/1‑149 (MQ=255)                                                                                                          atatCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGcc                                          <  1:778018/149‑1 (MQ=255)                                                                                                            atCCGTATTCTGCAGCCAGGGATTTAATCCTGCCGTGTTTGCCCGGCCATCCTGACCGGGCACTGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGAGCTTCCGAGCGTTTCTTcccccg                                        >  1:413331/1‑147 (MQ=255)                                                                                                              ccGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCcagca                                      <  1:841701/149‑1 (MQ=255)                                                                                                               cGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTATTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCcagcag                                     >  1:595769/1‑149 (MQ=255)                                                                                                                       gCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCca                             <  2:650016/149‑1 (MQ=255)                                                                                                                          gCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCcatca                          <  1:64295/149‑1 (MQ=255)                                                                                                                             aGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATcg                       >  1:833783/1‑149 (MQ=255)                                                                                                                             aGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATcg                       >  1:439032/1‑149 (MQ=255)                                                                                                                               ggATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATcgcg                     >  2:751892/1‑149 (MQ=255)                                                                                                                               ggATTTAATCCTGCCTTGTTCGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATcgcg                     <  2:101470/149‑1 (MQ=255)                                                                                                                                 aTTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCCGCAGCCTATCCATCATCCCGTc                   >  2:25090/1‑149 (MQ=255)                                                                                                                                 aTTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAAGGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTCGCGGCGAACCGCCGAGCGGTCCTTCGCCAGCCGCATATCCATCATCGCGTc                   >  2:565964/1‑149 (MQ=255)                                                                                                                                  tttAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATCGCGTCa                  >  1:770786/1‑149 (MQ=255)                                                                                                                                        ccTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATCGCGTCAGTACGc            >  1:885563/1‑149 (MQ=255)                                                                                                                                         cTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGt                                                   >  1:296315/1‑109 (MQ=255)                                                                                                                                         cTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGt                                                   <  2:296315/109‑1 (MQ=255)                                                                                                                                                  ttGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATCGCGTCAGTACGCTGATCGTCtt  >  2:443776/1‑149 (MQ=255)                                                                                                                                                  |                                                                                                                                                     TGATGATTGAGCAGTGGGAAAGCATCGCGCATCTTGAAGCGCATCTGCAAACCCCGCACATGAAGGCGTATAGCGAAGCCGTAAAAGGTGACGTGCTGGAGATGAATATCCGTATTCTGCAGCCAGGGATTTAATCCTGCCTTGTTTGCCCGGCCATCCTGACCGGGCAATGTTCTTTCCTTTAAACCTCAATCTCCGCCATGTCGCCTTTCTCTTGCAACCAGTTGCGGCGATCTTCCGAGCGTTTCTTCGCCAGCAGCATATCCATCATCGCGTCAGTACGCTGATCGTCTT  >  NC_000913_3_pae_tpiA/3173323‑3173616

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.