New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 3548549	24 (0.830)	11 (0.460) +TTTTTTTTTAATGATACGGCGAC	10/240	1.4	32.3%	coding (1522/2085 nt)	malQ	4‑alpha‑glucanotransferase (amylomaltase)
	?	NC_000913_3_pae_tpiA	3548573 =	31 (1.080)					coding (1498/2085 nt)	malQ	4‑alpha‑glucanotransferase (amylomaltase)

TCGACTGCTCCGGATACGCTTTCGGTGCACGGAACGTCTTCTCGTGGTCGTTTTCGAAATAGAGCACTTTGTAAGAGTACACACCGCTG‑CTGCGCAGCTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_tpiA/3548450‑3548549 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TACCGAGATCTTCACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCGGATAGTGAACATACGCGCCCTGATCTGCCGTCTCGCCATACG  >  NC_000913_3_pae_tpiA/3548573‑3548692                                                                                                      |||||||||||||||||||||||                                                                                                                         ttgtCTGCGCTGGATACGCTTTCGGTGCACGGAACGTCTTCTCGTGGTCGTTTTCGAAATAGAGTACTTTGTAAGAGTACACCCCGCTG‑CTGCGCAGCTTTTTTTTTTTAATGATACGGCGACCACCGAGATCTACACCAATCACCATA                                                                                                <  2:148554/145‑1          ttGGATACGCATTCTGTGCACGGAACGTCTTCTCGTGGTCGTTTTCGAAATAGATCACTTTGTAAGAGTACACACCGCTG‑CTGCGCAGCTTTTTTTTTTTAATGATACGGCGACCACCGAGATCTACACCAATCACCATACAGCGATGA                                                                                       <  2:119792/147‑1           tGGATACGCTCTCGGTGCACGGAACGTCTTCTCGTGGTCGTTTTCGAAATAGAGCACTTTGTAAGAGTACACACCGCTG‑CTGCGCAGCTTTTTTATTATAACTATACGGACACCACCGAGATCTACACCAATCACCATACAGCGATGAC                                                                                      <  2:152735/148‑1                             ACGTAACTTCTTCTCGTGGTCGTTTGTGAAATAGAGCACTTTGTAAGAGTACGCACCGCTG‑CTGCGCAGTTTTTTTTTTTTAATGATCCGGCGACCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCA                                                                    <  2:355105/149‑1                                            GTGGTCGTTTTGGAAATAGTGGACTGTGTAAGAGTACACACCGCTG‑CTGCGCAGCTTTTTTTTTTTAATGATCCGGCGACCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGAT                                                     <  2:431370/149‑1                                              GGTCGTTTTCGAAATAGCGCACTTTGTAAGAGTACACACCGCTG‑CTGCGTAGCTTTTTTTTTTTAATGATACGGCGACCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCA                                                   <  2:369018/149‑1                                                     ttgGAAATAGAGCACTTTTTACGAGTACACACCGCTG‑CTGCGCAGCTTTTTTTTTTTAATGATACGGCGACCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCG                                            <  2:430582/146‑1                                                                        aagtAGTACACACCGGTG‑GTGTGTAGTTTTTTTTTTTTAATGATTGGGCGGGCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCGGATAGTGAACATACGCGCC                         <  2:74902/145‑1                                                                              TACACACCGCTG‑CTGCGCAGCTTACTTACTTTCATGACACGGACACCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCGGATAGTGAACATACGCGCCCTGATC                   <  2:340384/149‑1                                                                                   cCCGCTGCCTACGTAGCTTTTTTTTTTTAATGACCGGGCGACCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCGGATAGTGAACATACGCGCCCTGATCTGCC               <  2:4228/148‑1                                                                                                gcGCTTATCTTTTTTAATTATCGGGCGGCCACCGAGATCTACACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCGGATAGTGAACATACGCGCCCTGATCTGCCGTCTCGCCATACG  <  2:373714/147‑1                                                                                                      |||||||||||||||||||||||                                                                                                                         TCGACTGCTCCGGATACGCTTTCGGTGCACGGAACGTCTTCTCGTGGTCGTTTTCGAAATAGAGCACTTTGTAAGAGTACACACCGCTG‑CTGCGCAGCTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_tpiA/3548450‑3548549 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TACCGAGATCTTCACCAATCACCATACAGCGATGACGTTTACTTTCGAGTGCCAGAATCGAGAGCAGATCATCCACCGGATAGTGAACATACGCGCCCTGATCTGCCGTCTCGCCATACG  >  NC_000913_3_pae_tpiA/3548573‑3548692

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.