New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 82289	43 (1.090)	5 (0.130)	5/266	4.3	10.9%	coding (1241/1572 nt)	leuA	2‑isopropylmalate synthase
	?	NC_000913_3_pae_tpiA	= 82309	41 (1.100)					coding (1221/1572 nt)	leuA	2‑isopropylmalate synthase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCGGTCAGGCTGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGTAATCAAACACCTGACCTTTTTTGTCCGCCAGCTTCAGGAAAGCA  >  NC_000913_3_pae_tpiA/82172‑82456                                                                                                                                          |                                                                                                                                                    gCGGTGCGGCTGTATTTCACCAGTTCGACGGTATATTCAGGGATGCGGTTAATTGCCTGATAGACGGCAGCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATc                                                                                                                                          <  2:297754/149‑1 (MQ=255) gCGGTCAGGCTGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATc                                                                                                                                          <  2:108506/149‑1 (MQ=255)  cGGTCAGGCTGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCg                                                                                                                                         >  2:248170/1‑149 (MQ=255)    gttgggCTGTATTTCACCAGTTAGACGTTATATTCAGTGATGCGGTGAATTGCGTGACAGACGGCATCGACCGGACCGTTACCGTTGGCGGCGTCTGCTTGGACTTCTTCGCCACTTGCCAGTTTGACGGTGGCGGTGGCGATAACGtt                                                                                                                                       <  2:26438/145‑1 (MQ=255)         gCTGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGc                                                                                                                                  <  1:151063/149‑1 (MQ=255)          ttGTATTTTACCTGTTCGGAGTTCGATGCACTGATGCGTTTAATTGCCTGATAGACGGTAGCGAACGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTATTCGCCACAGGCCAG‑TTGACGGCGGCGGTGGCGATATCGTTAGAGCCa                                                                                                                                <  2:433344/148‑1 (MQ=255)          cTGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTagagac                                                                                                                                 >  2:639571/1‑147 (MQ=255)           tGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCa                                                                                                                                >  1:505865/1‑149 (MQ=255)             tATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGa                                                                                                                              <  2:236939/149‑1 (MQ=255)               tttCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGGCACAGTCAAGTTTGAAGGCGGCGGTGGGGATATCGTTAGAGCCAGACt                                                                                                                            >  1:93443/1‑149 (MQ=255)                     cAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGc                                                                                                                      >  2:244474/1‑149 (MQ=255)                      aGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCCGTTTGACGGCGGCGGTGGCGCTATCGTGTGAGCCAGAATGCCCGCt                                                                                                                     >  1:498214/1‑149 (MQ=255)                         tCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGaa                                                                                                                  <  1:48971/149‑1 (MQ=255)                               ttATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCATGCTGCCCGCTTAAGTAATc                                                                                                            >  1:320071/1‑149 (MQ=255)                                 atatTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCa                                                                                                          <  2:546339/149‑1 (MQ=255)                                 atatTCAGTGATGCGGTTAATTGCCAGATAGACGTCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGCCGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCa                                                                                                          <  1:602292/149‑1 (MQ=255)                                            tGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGa                                                                                                                                              <  2:534073/102‑1 (MQ=255)                                            tGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCATTGGCGGCTTCTGCTTTGACTTCTTAGCCACAGGCCAGTTTGACGGCGGCGGTGGCGa                                                                                                                                              >  1:534073/1‑102 (MQ=255)                                                gTTAATTGCCTGATCGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCCGTGACTTCTTCGCCCCAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGCACCAGACTGCACGGCGAAGTAAACCAGCCGGACCTGCTCCg                                                                                           >  2:338592/1‑149 (MQ=255)                                                      tGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTGCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCtctt                                                                                     <  2:51973/149‑1 (MQ=255)                                                       gCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCtcttc                                                                                    >  1:675617/1‑149 (MQ=255)                                                                 cGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGTTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTa                                                                          >  2:150846/1‑149 (MQ=255)                                                                     aTCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGa                                                                      <  1:102953/149‑1 (MQ=255)                                                                      tCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGCCTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGAt                                                                     >  1:114344/1‑149 (MQ=255)                                                                      tCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGAt                                                                     <  1:568220/149‑1 (MQ=255)                                                                             gaccgTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAAt                                                                                                 >  1:476589/1‑114 (MQ=255)                                                                             gaccgTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAAt                                                                                                 <  2:476589/114‑1 (MQ=255)                                                                                cgttaccgttGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCGGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAgc                                                           >  2:202936/1‑149 (MQ=255)                                                                                   gaccgttGGCGGCGTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCacggta                                                        <  2:274383/148‑6 (MQ=255)                                                                                     ccgttGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTc                                                      <  1:343247/149‑1 (MQ=255)                                                                                      cgttTGCCGCTTCTGCGTTGCCTTCTTCGCCACAGGCCAGGTTGAACGAGGGGCTGGCAAGATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCGCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTcc                                                     <  1:132309/149‑1 (MQ=255)                                                                                           gcggcTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATc                                                >  1:354259/1‑149 (MQ=255)                                                                                             ggcTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGt                                              <  2:354259/149‑1 (MQ=255)                                                                                              gcTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTAAAGATGGCGATCTGCGCCTCCAGTTCGTa                                             <  2:505865/149‑1 (MQ=255)                                                                                                    gCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGTCATCaaa                                       >  2:319920/1‑149 (MQ=255)                                                                                                      tttGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGGTGAAGGCCAGCGCCTCCAGCTCATAATCAAgca                                     >  2:108534/1‑149 (MQ=255)                                                                                                            ttcttcGACACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGTAATCAAACACCTGAc                               <  1:150846/149‑1 (MQ=255)                                                                                                               ttcGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGCAGGCCAGCGCCTCCAGATCGTACTCAAACAcccaaccat                            >  1:71417/1‑142 (MQ=255)                                                                                                                         gCCAGTTTGACGGCGGCGGTGGCGATATCGTTaga                                                                                                                                    <  2:416844/35‑1 (MQ=255)                                                                                                                         gCCAGTTTGACGGCGGCGGTGGCGATATCGTTaga                                                                                                                                    >  1:416844/1‑35 (MQ=255)                                                                                                                           cAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATCAAGGCCAGCGCCTCCAGATCGCAATCAAACACCTGACCTTTTTTGTCCGCCa                >  2:34285/1‑149 (MQ=255)                                                                                                                              tttGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAAACGGACATGCTCCTGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGTACGCAAACACCTGACCTTTCTTGTCCGCCCGCt             >  1:186709/1‑149 (MQ=255)                                                                                                                                         cggTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGTAATCAAACACATCACCTGTTTTGTCCGCCAGCTTCAGGAAAGCa  <  2:675617/149‑1 (MQ=255)                                                                                                                                          |                                                                                                                                                    GCGGTCAGGCTGTATTTCACCAGTTCGACGTTATATTCAGTGATGCGGTTAATTGCCTGATAGACGGCATCGACCGGACCGTTACCGTTGGCGGCTTCTGCTTTGACTTCTTCGCCACAGGCCAGTTTGACGGCGGCGGTGGCGATATCGTTAGAGCCAGACTGCACGCTGAAGTAATCCAGACGGAAATGCTCCGGCTCTTCTTGCTGCTTACCGATGAAGGCCAGCGCCTCCAGATCGTAATCAAACACCTGACCTTTTTTGTCCGCCAGCTTCAGGAAAGCA  >  NC_000913_3_pae_tpiA/82172‑82456

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.