New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	446776 =	28 (0.970)	7 (0.260)	7/266	2.4	21.2%	intergenic (‑110/+39)	yajR/cyoE	putative transporter/protoheme IX farnesyltransferase
	?	NC_000913_3_pae_tpiA	446800 =	26 (0.970)					intergenic (‑134/+15)	yajR/cyoE	putative transporter/protoheme IX farnesyltransferase

TCTGGGCGCGCAAGCTGTTCGGCTTCTCTATCATCGCCATCACTGCCCTCTCGGTGATGATGTCCGTTGATTTTATGGTACCGGACTCGCATACGCTGCTGGCTGCTGTGTGGTAACAAAACCTCTCTATTAAAAAGGTGCTACGGCACCTTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/446930‑446776 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcacctttttAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGTCATCAGCAACT  >  NC_000913_3_pae_tpiA/446800‑446947                                                                                                                                                                                                                                                                                                                 TCTGGGCGCGCAAGCTGTTCGGCTTCTCTATCATCGCCATCACTGCCCTCTCGGTGATGATGTCCGTTGATTTTATGGTACCGGACTCGCATACGCTGCTGGCTGCTGTGTGGTAACAAAACCTCTCTATTAAAAAGGTGCTACGGCAC                                                                                                                                                            <  1:402442/149‑1                                                                                                        TGCTGTGTGGTAACAAAACCTCTCTATTAAAAAGGTGCTACGGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCG                                                     >  1:2076/1‑149                                                                                                                      AAAACCTCTCTATTAAAAAGGTGCTACGGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCA                                                              <  1:430785/126‑1                                                                                                                      AAAACCTCTCTATTAAAAAGGTGCTACGGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCA                                                              >  2:430785/1‑126                                                                                                                           CTCTCTATTAAAAAGGTGCTACGGCACCTTTTTAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACA                                  >  1:280541/1‑149                                                                                                                                   TAAAAAGGTGCTACGGCACCTTTTTAATAGAGAGGTTTTGTCACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAA                                                                                     >  1:26023/1‑90                                                                                                                                   TAAAAAGGTGCTACGGCACCTTTTTAATAGAGAGGTTTTGTCACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAA                                                                                     <  2:26023/90‑1                                                                                                                                     AAAAGGGGCTACGGCACCTTTTTAATGGAGAGGGTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGC                        >  1:485324/1‑149                                                                                                                                                           TAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGTCATCAGCAACT  <  2:2076/149‑1                                                                                                                                                                                                                                                                                                                 TCTGGGCGCGCAAGCTGTTCGGCTTCTCTATCATCGCCATCACTGCCCTCTCGGTGATGATGTCCGTTGATTTTATGGTACCGGACTCGCATACGCTGCTGGCTGCTGTGTGGTAACAAAACCTCTCTATTAAAAAGGTGCTACGGCACCTTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_tpiA/446930‑446776 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcacctttttAATAGAGAGGTTTTGTTACCACACAGCAGCCAGCAGCGTATGCGAGTCCGGTACCATAAAATCAACGGACATCATCACCGAGAGGGCAGTGATGGCGATGATAGAGAAGCCGAACAGCTTGCGCGCCCAGATTCTGTCATCAGCAACT  >  NC_000913_3_pae_tpiA/446800‑446947

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.