New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3596422 =	5 (0.440)	3 (0.280)	3/248	NT	43.7%	intergenic (‑19/+29)	livH/livK	branched‑chain amino acid ABC transporter permease/leucine transporter subunit
	?	NC_000913	3596443 =	3 (0.280)					intergenic (‑40/+8)	livH/livK	branched‑chain amino acid ABC transporter permease/leucine transporter subunit

GGGCGAAGTTGATCATGCCGATAATGCCGTAAACCATGGTGTAGCCGATGGCTATCAGCGCGTAGGTACTGCCCAGCGTGACGCCGTTAAACATCTGCTGCAAGAAATACAAAAACTGCTCAGACATAAGGTAACCTTTCTAAACCCGCCCGCATTTTACGGGCGGTGGGATGATCACTTGGCTGCCGTGGATGAACCGTCGGCGTGCCACTGGAAGACACCAAAATCAAATCCCTTAAGATCGCCTTTTTCATCCCAGTTCAGCGGCCCAATCACGGTGTTTGCACC  >  NC_000913/3596277‑3596564                                                                                                                                                  |                                                                                                                                               tggtgaaagatttaaaagctaacggtgcaaacaccgtgattgggccgctgaactgggatgaaaaaggcgatcttaagggatttgattttggtgtcttccagtggcacgccgacggttcatccacggcagccaagtgatcatcccaccgc                                                                                                                                             <  4:51708‑M1/4‑1 (MQ=255)                                            gCCGATGGCTATCAGCGCGTAGGTACTGCCCAGCGTGACGCCGTTAAACATCTGCTGCAAGAAATACAAAAACTGCTCAGACATAAGGTAACCTTTCTAAACCCGCCCGCATTTTACGGGCGGTGGGATGATCACTTGGCTGCCGTGGa                                                                                                  <  3:47401/149‑1 (MQ=255)                                                                                        tAAACATCTGCTGCAAGAAATACAAAAACTGCTCAGACATAAGGTAACCTTTCTAAACCCGCCCGCATTTTACGGGCGGTGGGATGATCACTTGGCTGCCGTGGATGAACCGTCGGCGTGCCACTGGAAGACACCAAAATCAAATCCCt                                                      <  3:100617/149‑1 (MQ=255)                                                                                              tcttccagtggcacgccgacggttcatccacggcagccaagtgatcatcccaCCGCCCGCATTTTACGGGCGGTg                                                                                                                          <  3:48186‑M1/23‑1 (MQ=255)                                                                                              tcttccagtggcacgccgacggttcatccacggcagccaagtgatcatcccaCCGCCCGCATTTTACGGGCGGTg                                                                                                                          >  4:48186‑M1/53‑75 (MQ=255)                                                                                                             aCAAAAACTGCTCAGACATAAGGTAACCTTTCTAAACCCGCCCGCATTTTACGGGCGGTg                                                                                                                          <  1:10138/60‑1 (MQ=255)                                                                                                             aCAAAAACTGCTCAGACATAAGGTAACCTTTCTAAACCCGCCCGCATTTTACGGGCGGTg                                                                                                                          >  2:10138/1‑60 (MQ=255)                                                                                                                                        cTTTCTAAACCCGCCCGCATTTTACGGGCGGTGGGATGATCACTTGGCTGCCGTGGATGAACCGTCGGCGTGCCACTGGAAGACACCAAAATCAAATCCCTTAAGATCGCCTTTTTCATCCCAGTTCAGCGGCCCAATCACGGTGTTTg      >  1:49981/1‑149 (MQ=255)                                                                                                                                            atcccaCCGCCCGTAAAATGCGGGCGGTGGGATGATCACTTGGCTGCCGTGGATGAACCGTCGGCGTGCCACTGGAAGACACCAAAATCAAATCCCTTAAGATCGCCTTTTTCATCCCAGTTCAGCGGCCCAATCACGGTGTTTGCAcc  <  3:51708‑M1/143‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                               GGGCGAAGTTGATCATGCCGATAATGCCGTAAACCATGGTGTAGCCGATGGCTATCAGCGCGTAGGTACTGCCCAGCGTGACGCCGTTAAACATCTGCTGCAAGAAATACAAAAACTGCTCAGACATAAGGTAACCTTTCTAAACCCGCCCGCATTTTACGGGCGGTGGGATGATCACTTGGCTGCCGTGGATGAACCGTCGGCGTGCCACTGGAAGACACCAAAATCAAATCCCTTAAGATCGCCTTTTTCATCCCAGTTCAGCGGCCCAATCACGGTGTTTGCACC  >  NC_000913/3596277‑3596564

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.