New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2499276	12 (0.960)	4 (0.340)	4/244	1.1	24.8%	coding (606/1698 nt)	ypdA	sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system
	?	NC_000913_3_pae_tpiA	= 2499293	13 (1.110)					coding (623/1698 nt)	ypdA	sensor kinase regulating yhjX; pyruvate‑responsive YpdAB two‑component system

CCGCGTTGGGGATCGATATCGTCTCTAAAATCGGCATTCCAATGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCATTACGCAAGGTCTGCGAAATTATCCGCGATGACATTCACGCCGATGCGGTGGCGATTACTAAT  >  NC_000913_3_pae_tpiA/2499158‑2499414                                                                                                                       |                                                                                                                                           ccGCGTTGGGGATCGATATCGTCTCTAAAATCGGCATTCCAATGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAG‑‑‑‑‑‑GCCagcttggcctgccgcgcggcgctggcctctttttcgc                                                                                                       <  2:49682‑M1/150‑38 (MQ=255)                             aaTCGGCATTCCAATGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGCGACCTTCCTCGAAGCCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCa                                                                                 <  1:14143/150‑1 (MQ=255)                                ctggtatCCAATGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGt                                                                              <  2:15934/144‑1 (MQ=255)                                      tCCAATGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCagcttggcctgccgcgcggcgctggcctctttttcgccctcaacgctttgcaccagaagcacaataaa                                                                        <  3:60413‑M1/150‑69 (MQ=255)                                           tGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAgg                                                                                                                                  <  4:24234/87‑1 (MQ=255)                                           tGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAgg                                                                                                                                  >  3:24234/1‑87 (MQ=255)                                                                  ggCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCATTACGCAAGGTCTGCGCAAtt                                            >  2:87007/1‑150 (MQ=255)                                                                     tttATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTggcgctggcctctttttcgccctcaacgctttgcaccagaagcacaataaagccgatacagacgctaccgaggatcattgga                                         <  3:60413‑M2/150‑83 (MQ=255)                                                                                 cTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCATTACGCAAGGTCTGCGAAATTATCCGCGATGACAtt                             <  1:23356/150‑1 (MQ=255)                                                                                   ggTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCATTACGCAAGGTCTGCGAAATTATCCGCGATGACATTCa                           <  1:108924/150‑1 (MQ=255)                                                                                              ttGAGGGCGAAAAAGAGGCCAGCGCCagcttggcctgccgcgcg                                                                                                                          <  1:19113‑M1/44‑19 (MQ=255)                                                                                              ttGAGGGCGAAAAAGAGGCCAGCGCCagcttggcctgccgcgcg                                                                                                                          >  2:19113‑M1/1‑26 (MQ=255)                                                                                                 aGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTc                                                                             <  4:84454/86‑1 (MQ=255)                                                                                                 aGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTc                                                                             >  3:84454/1‑86 (MQ=255)                                                                                                    gCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTggcctctttttcgccctcaacgctttgcaccagaagcacaataaagccgatacagacgctaccgaggatcattggaatgccgattttagagacgatatcgatccccaacgcgg          <  2:49682‑M2/150‑114 (MQ=255)                                                                                                            gagGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCATTACGCAAGGTCTGCGAAATTATCCGCGATGACATTCACGCCGATGCGGTGGCGATTACTAAt  >  4:19831/1‑150 (MQ=255)                                                                                                               gCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCAtt                                                               >  2:56299/1‑86 (MQ=255)                                                                                                               gCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCAtt                                                               <  1:56299/86‑1 (MQ=255)                                                                                                                       cgcgcgGCAGGCCAAGCTggcgctggcctctttttcgccctcaa                                                                                                 >  2:19113‑M2/1‑18 (MQ=255)                                                                                                                       cgcgcgGCAGGCCAAGCTggcgctggcctctttttcgccctcaa                                                                                                 <  1:19113‑M2/44‑27 (MQ=255)                                                                                                                       |                                                                                                                                           CCGCGTTGGGGATCGATATCGTCTCTAAAATCGGCATTCCAATGATCCTCGGTAGCGTCTGTATCGGCTTTATTGTGCTTCTGGTGCAAAGCGTTGAGGGCGAAAAAGAGGCCAGCGCCGCGCGGCAGGCCAAGCTGGCGCTGGATATCGCCAACAAAACGCTACCGCTGTTTCGCCATGTCAATAGCGAGTCATTACGCAAGGTCTGCGAAATTATCCGCGATGACATTCACGCCGATGCGGTGGCGATTACTAAT  >  NC_000913_3_pae_tpiA/2499158‑2499414

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