New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_tpiA = 336528446 (1.440)5 (0.160) 5/272 3.6 10.4% pseudogene (100/367 nt) yhcE pseudogene fragment; interrupted by IS5
?NC_000913_3_pae_tpiA = 3365294 42 (1.370)pseudogene (110/367 nt) yhcE pseudogene fragment; interrupted by IS5
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTTCTATGAGACAGCAACAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATTTCCAACAACGGATTTGGATTTGGCC  >  NC_000913_3_pae_tpiA/3365155‑3365437
                                                                                                                                           |                                                                                                                                               
gtTCTATGAAACAGCAACAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGAAAACCAAATGCTGACATacg                                                                                                                                        >  2:156624/1‑149 (MQ=255)
 ttCTATGAGACAGCAACAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATgcgc                                                                                                                                       >  2:165099/1‑149 (MQ=255)
              cAACAGGCGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGCAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCggg                                                                                                                          <  2:66430/149‑1 (MQ=255)
              cAACAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGCGATTTGCCATGGCTACTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCggg                                                                                                                          >  2:65119/1‑149 (MQ=255)
               aaCAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCgggg                                                                                                                         >  1:272588/1‑149 (MQ=255)
                 cAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTAACCGGGGTa                                                                                                                       >  2:3856/1‑149 (MQ=255)
                   ggAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGGTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCACCTATGGCAAACGAAGTGCAGCAATGCGCCAAGTTAACCggcgaaca                                                                                                                     >  2:34976/1‑143 (MQ=255)
                         tcccAATGAAACGGACAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAacaaca                                                                                                               <  1:172569/147‑1 (MQ=255)
                         tGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAacaaca                                                                                                               <  1:165099/149‑1 (MQ=255)
                           ccAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGGCTATGGCAAACGAAGTGCTGCCATACGCCAAGTTGACCGGGGTAAAACAAcaca                                                                                                             >  1:489715/1‑149 (MQ=255)
                            cAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACaa                                                                                                            >  2:327297/1‑149 (MQ=255)
                             aaTGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAAcacact                                                                                                           >  2:139299/1‑147 (MQ=255)
                                   aCGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCGGCCTTGCGCAAAGCTGACGGGGGTAAAACAACCAAATTAGcag                                                                                                     >  2:91131/1‑149 (MQ=255)
                                   aCGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGCGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTCCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTCGcag                                                                                                     >  2:424589/1‑149 (MQ=255)
                                    cGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGcaga                                                                                                    <  1:101193/149‑1 (MQ=255)
                                         aatacgcggATGCCTGCTGCTGAACCTCGCCATGGCCGCTCCGGCAGCGTGTCCTCTCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGaa                                                                                               <  2:391704/142‑1 (MQ=255)
                                         aataaCAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGaa                                                                                               <  1:383477/149‑1 (MQ=255)
                                           taaCAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAAACAGAACa                                                                                             >  2:261741/1‑149 (MQ=255)
                                              cAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGATAACCGGGGTAAAACAACACAATTAGCGGACAGaaaactc                                                                                          >  2:435239/1‑144 (MQ=255)
                                               aGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCa                                                                                         >  1:409923/1‑149 (MQ=255)
                                                 gATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACg                                                                                       >  1:174153/1‑149 (MQ=255)
                                                  aTGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGc                                                                                      >  2:143284/1‑149 (MQ=255)
                                                      ctgctgctgAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATAGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCAGGCTGGt                                                                                  >  2:340109/1‑149 (MQ=255)
                                                        gctgctgAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTaa                                                                                <  1:569716/149‑1 (MQ=255)
                                                          tgctgAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTaatg                                                                              <  1:508976/149‑1 (MQ=255)
                                                             tgAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTaatgcaa                                                                           >  2:451811/1‑149 (MQ=255)
                                                              gAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTaatgcaat                                                                          <  1:327297/149‑1 (MQ=255)
                                                                  ttCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGa                                                                      >  1:195961/1‑149 (MQ=255)
                                                                  ttCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATCCGa                                                                      >  1:122943/1‑149 (MQ=255)
                                                                     gCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCa                                                                   <  1:497050/149‑1 (MQ=255)
                                                                      ccATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAg                                                                  >  1:285373/1‑149 (MQ=255)
                                                                                 cAGGCAGAGTATAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTACCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCatat                                                       <  1:65119/149‑1 (MQ=255)
                                                                                    gCAGAGTATAATATCTCCAGTAGCATACAAAATATCGACTATCGCAAACGAAGTGCTACCATGCAACAAGTTCACCGGGGGAAAAAAAGATAATTAACAGGCAGAACAATCACGCCGGCAAAGCAATGAGATAAGGACGCTCATATTCg                                                    >  2:335677/1‑149 (MQ=255)
                                                                                     cAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCgt                                                   <  1:517067/149‑1 (MQ=255)
                                                                                      agacTGTAATATCTCCAGGAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTTATATTCgtg                                                  <  1:241349/149‑1 (MQ=255)
                                                                                              atatCTCCAGTAGCATACAAACTATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACTCGGGTAAGGCAATGCGATCAGGACGCGCATATTCGGGTTCAGTTg                                          >  2:501735/1‑149 (MQ=255)
                                                                                                     cAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCg                                   <  1:451811/149‑1 (MQ=255)
                                                                                                            aTACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAatat                            >  1:2847/1‑149 (MQ=255)
                                                                                                               cAACATATCGACCATGGCAAACGCAGTGCTACCATGCGCCAAGTTGCACGGGGTAAAACAACACAATTAGCAGACAGAACCATCCCGCTGGTAATGCAATGCTATCAGAACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATATc                         <  2:7509/149‑1 (MQ=255)
                                                                                                                    tatCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATTTCcaaca                    >  1:471484/1‑149 (MQ=255)
                                                                                                                         accaaggCAAACCACGTGCTGCCATGCGCCAAGATGACCGTGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATTTCCAACAACgga               <  1:242830/144‑1 (MQ=255)
                                                                                                                                 aaaCGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATTTCCAACAACggatttggatt       >  2:368434/1‑149 (MQ=255)
                                                                                                                                      aaGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATTTCCAACAACGGATTTGGATTTGGcc  <  1:3856/149‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                               
GTTCTATGAGACAGCAACAGGAGAGTGCCAATGAAACGGATAATAACAGGATGCCTGCTGCTGAACTTCGCCATGGCCGCTCAGGCAGAGTGTAATATCTCCAGTAGCATACAAAATATCGACTATGGCAAACGAAGTGCTGCCATGCGCCAAGTTGACCGGGGTAAAACAACACAATTAGCAGACAGAACAATCACGCTGGTAATGCAATGCGATCAGGACGCTCATATTCGTGTTCAGTTGAATACCGCTAATATTTCCAACAACGGATTTGGATTTGGCC  >  NC_000913_3_pae_tpiA/3365155‑3365437

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.