New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3595984 =	35 (1.260)	4 (0.150)	4/252	3.0	12.5%	coding (420/927 nt)	livH	branched‑chain amino acid ABC transporter permease
	?	NC_000913	3596035 =	23 (0.870)					coding (369/927 nt)	livH	branched‑chain amino acid ABC transporter permease
Rejected: Frequency below/above cutoff threshold.

CGCCAGCATGGCGAGGAAGGTAACAATCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGTTCGATACTCCAGCCGTAGGCGCTGGCAATGACGATTGCGCCGACGAATCCCGCA  >  NC_000913/3595894‑3596182                                                                                                                                              |                                                                                                                                                    cgcCAGCATAGCGAGTAAGGTAACAATCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTATACGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACg                                                                                                                                               >  8:36402/1‑148 (MQ=255)    cAGCATGGCGAGGAAGGTAACAATCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGt                                                                                                                                           >  3:33629/1‑149 (MQ=255)                      aaCAATCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCa                                                                                                                                     <  2:111006/137‑1 (MQ=255)                      aaCAATCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACAGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCa                                                                                                                                     >  1:111006/1‑137 (MQ=255)                         aaTCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATAc                                                                                                                      <  4:33629/149‑1 (MQ=255)                                    ccGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCa                                                                                                              >  1:1287/1‑146 (MQ=255)                                                           gCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTaga                                                                                    <  2:26896/149‑1 (MQ=255)                                                              gagaAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGtt                                                                                 <  7:36402/149‑1 (MQ=255)                                                               agaAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGc                                                                                                                                                    >  8:13498/1‑81 (MQ=255)                                                               agaAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGc                                                                                                                                                    <  7:13498/81‑1 (MQ=255)                                                               agaAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCtt                                                                                       <  6:55458/142‑1 (MQ=255)                                                               agaAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCtt                                                                                       >  5:55458/1‑142 (MQ=255)                                                                    ttttCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCAc                                                                           <  2:1287/149‑1 (MQ=255)                                                                               ccccACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAg                                                                >  4:113413/1‑149 (MQ=255)                                                                                cccACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGc                                                               >  1:98880/1‑149 (MQ=255)                                                                                 ccaccaCCCACTGACCGCTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGc                                                               >  1:112384/1‑148 (MQ=255)                                                                                   agcacccacTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCTGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGgcgc                                                                                         <  6:5914/118‑1 (MQ=255)                                                                                   accaccCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGa                                                                                                                           >  4:29166/1‑86 (MQ=255)                                                                                   accaccCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGa                                                                                                                           <  3:29166/86‑1 (MQ=255)                                                                                   accaccCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCAc                                                            <  2:98880/149‑1 (MQ=255)                                                                                           ctgaccgaaggttcgcgcgacgtggcgctgccgagcctgtttaacggtcagGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGAGCTTAGAGTTACGCACCGGGCGGt                                                                   <  7:94291‑M2/83‑1 (MQ=255)                                                                                           ctgaccgaaggttcgcgcgacgtggcgctgccgagcctgtttaacggtcagGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGAGCTTAGAGTTAAGCACCGGGCGGt                                                                   >  8:94291‑M2/52‑134 (MQ=255)                                                                                              ACCGCTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGTTCGAt                                                   >  2:112384‑M1/1‑147 (MQ=255)                                                                                                     gttcgcgcgacgtggcgctgccgagcctgtttaacggtcagGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTaga                                                                                    <  5:43108‑M2/66‑1 (MQ=255)                                                                                                     gttcgcgcgacgtggcgctgccgagcctgtttaacggtcagGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTaga                                                                                    >  6:43108‑M2/42‑107 (MQ=255)                                                                                                     aaCAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGtt                                                       <  2:55867/136‑1 (MQ=255)                                                                                                     aaCAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGtt                                                       >  1:55867/1‑136 (MQ=255)                                                                                                                                     ttCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGTTCGATACTCCAGCCGTAGGCGCTGGCAATGACGATTGCGCcgacg           >  1:48807/1‑148 (MQ=255)                                                                                                                                            agGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCa                                                             >  7:62434‑M2/3‑91 (MQ=255)                                                                                                                                            agGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCa                                                             <  8:62434‑M2/89‑1 (MQ=255)                                                                                                                                             gGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGTTCGATACTCCAGCCGTAGGCGCTGGCAATGACGATTGCGCCGACGAATCCCGCa  <  3:113413‑M2/148‑1 (MQ=255)                                                                                                                                              |                                                                                                                                                    CGCCAGCATGGCGAGGAAGGTAACAATCCAGATCACCGCCTGCATGGTGGTAATAGAGGCAGAGAAGTTTTCGCTATGCCCCACCACCCACTGACCGTTAAACAGGCTCGGCAGCGCCACGTCGCGCGAACCTTCGGTCAGGCTGACGTAGTTTTGCAGGAAGATGGACATACCGATTGCAGAGATGAGTGCAATCAGGCGCTTAGAGTTACGCACCGGGCGGTAAGCCACCCGTTCGATACTCCAGCCGTAGGCGCTGGCAATGACGATTGCGCCGACGAATCCCGCA  >  NC_000913/3595894‑3596182

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ 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.