New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1570598 =	53 (1.330)	4 (0.110) +CCGTTACCGTTAAAC	4/248	5.0	10.0%	intergenic (‑109/+47)	gadC/gadB	glutamate:gamma‑aminobutyric acid antiporter/glutamate decarboxylase B, PLP‑dependent
	?	NC_000913_3_pae_tpiA	3666176 =	28 (0.700)					intergenic (‑366/+4)	gadX/gadA	acid resistance regulon transcriptional activator; autoactivator/glutamate decarboxylase A, PLP‑dependent
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAG  >  NC_000913_3_pae_tpiA/1570450‑1570740                                                                                                                                                      |                                                                                                                                               tgAGCTGCGTAGCTTTACCTGTCTGTACGGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAAtt                                                                                                                                                <  2:92751/149‑1 (MQ=255)        ctTAGCTTTACCTGTCTGTACTGATGTCGCCATATCACCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTATTGCCCGTGAACAGACTTTGGAAATTGTCCCGa                                                                                                                                         >  2:336859/1‑149 (MQ=255)         ttAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGaa                                                                                                                                        >  2:274542/1‑149 (MQ=255)         ttAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGaa                                                                                                                                        >  2:700535/1‑149 (MQ=255)            gCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGAACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCCGTGAACAGACTTTGGAAAATGTCCCCAAACg                                                                                                                                     >  2:438773/1‑149 (MQ=255)             cTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAAAgg                                                                                                                                    >  1:175952/1‑149 (MQ=255)                     gtctggACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGttt                                                                                                                            <  1:164733/149‑1 (MQ=255)                      tctgtACTGATGTAGCCATATTACCCCCCACATACGGTACTCCTGTGGGCGCTCTCGCGTG‑TTTGTTCTTAAGCTTATTCAGAACTATATTTTCCGTTGCTAATGCCAGTGAACAGTCTTTGGAAATTGTCCCGAAACGGGTTCGTTTc                                                                                                                           <  1:318224/149‑1 (MQ=255)                        tgtACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCgg                                                                                                                         >  1:604703/1‑149 (MQ=255)                          tACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTTTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGa                                                                                                                       >  2:639451/1‑149 (MQ=255)                             tGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGacac                                                                                                                    >  1:591150/1‑149 (MQ=255)                              gATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTATGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACacc                                                                                                                   >  2:31962/1‑149 (MQ=255)                                       atatTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGt                                                                                                                                              <  2:273877/113‑1 (MQ=255)                                       atatTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGt                                                                                                                                              >  1:273877/1‑113 (MQ=255)                                              cccccTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGtc                                                                                                   >  1:449190/1‑148 (MQ=255)                                                   tAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAg                                                                                              >  2:284323/1‑149 (MQ=255)                                                      aaCGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGGACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGAAAATTGTCCCGAAACGGTTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGTTa                                                                                           >  2:244391/1‑149 (MQ=255)                                                         ggTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACTGTTAAACGTTATCAGGTATGt                                                                                        <  1:174188/149‑1 (MQ=255)                                                              tCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTaaa                                                                                   <  1:639451/149‑1 (MQ=255)                                                               ccTGTCGGAAC‑CGCACCTGTTTTGGTCTGAAGCGTATTCAGAATAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAg                                                                                  <  2:627748/149‑1 (MQ=255)                                                                   tCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGctgt                                                                              <  1:700535/149‑1 (MQ=255)                                                                     ggAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTAGGTTTAAAGatgttc                                                                            >  1:422201/1‑149 (MQ=255)                                                                      gAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGctgttct                                                                           <  1:381039/149‑1 (MQ=255)                                                                           cGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTg                                                                       <  1:515637/149‑1 (MQ=255)                                                                           cGCACCTGTTTTGTTACGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTg                                                                       <  1:274542/149‑1 (MQ=255)                                                                                cTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGct                                                                                <  2:333553/135‑1 (MQ=255)                                                                                cTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGct                                                                                >  1:333553/1‑135 (MQ=255)                                                                                cTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCaa                                                                  >  1:396387/1‑149 (MQ=255)                                                                                  gTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCGATTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGTACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATa                                                                >  2:636831/1‑149 (MQ=255)                                                                                    ttcgTTATGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTACCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATAcc                                                              <  2:514448/146‑1 (MQ=255)                                                                                     ttGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGt                                                                                        >  1:693964/1‑122 (MQ=255)                                                                                     ttGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGt                                                                                        <  2:693964/122‑1 (MQ=255)                                                                                           tGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTTTTGGGAAATACCCTGCGGt                                                       >  2:33301/1‑149 (MQ=255)                                                                                               gCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCg                                                   <  2:604703/149‑1 (MQ=255)                                                                                                 gTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTGCCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCggg                                                 <  1:284323/149‑1 (MQ=255)                                                                                                       aGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTc                                                                                                                                             >  2:525915/1‑51 (MQ=255)                                                                                                       aGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTc                                                                                                                                             <  1:525915/51‑1 (MQ=255)                                                                                                       aGAACAATATTTTCCGTTGCAAATGCAAGTGAAGAGACTTTGGAAATTGTCTCGAAACGGGTTTGTTTCGGGACAACGTTAAAGTTAAACGCCATCAGGCATGTTTAAAGGTGTTCTGTTCGGCAGACCACTTCAGTTACGGGTgttgg                                           >  2:495985/1‑145 (MQ=255)                                                                                                          aCAATATTTTGCGTTGCTAATGCCAGTGAACAGACGTTGGAAATCGTCCCGAAACGGTTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTg                                        <  2:151586/149‑1 (MQ=255)                                                                                                          aCAATATTGTCCGTTGATAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTg                                        <  2:95056/149‑1 (MQ=255)                                                                                                            aaTATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTga                                       <  2:445209/148‑1 (MQ=255)                                                                                                            aaTATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTga                                       >  1:445209/1‑148 (MQ=255)                                                                                                                             aTGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCtt                     >  2:464771/1‑149 (MQ=255)                                                                                                                                 cAGTGAACCGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGCCACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGTTGTTCTGCTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTa                 <  1:596352/149‑1 (MQ=255)                                                                                                                                    tGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTc              <  1:31962/149‑1 (MQ=255)                                                                                                                                     taaCAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCt             <  1:438773/148‑1 (MQ=255)                                                                                                                                      aatgtgttttGGAAATTGGTCCGAAACGGGTTCGTTTGTGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGTCAATATCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCtt            <  2:117908/142‑1 (MQ=21)                                                                                                                                             tttGGAAATTGTTCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCaa     <  1:545859/149‑1 (MQ=255)                                                                                                                                             tttGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCaa     <  1:545820/149‑1 (MQ=255)                                                                                                                                               tGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACa   <  1:464771/149‑1 (MQ=255)                                                                                                                                               tGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACa   <  1:175309/149‑1 (MQ=255)                                                                                                                                                ggAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAg  <  2:396387/149‑1 (MQ=255)                                                                                                                                                ggAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAg  <  1:147365/149‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                               TGAGCTGCTTAGCTTTACCTGTCTGTACTGATGTAGCCATATTATCCCCCTAAAACGGTATTCCTGTCGGAAC‑CGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAG  >  NC_000913_3_pae_tpiA/1570450‑1570740

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.