New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_vch_tpiA 4090599 =26 (0.800)5 (0.160) 5/274 3.7 14.1% noncoding (4090599/4641682 nt) repeat_region repeat region
?NC_000913_3_vch_tpiA 4090628 = 36 (1.150)noncoding (4090628/4641682 nt) repeat_region repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACCAATTTCCACGCCGCGCTTTTCCACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGATGTGGGTGACCATAAAGCCGACTTCATCCATATGT  >  NC_000913_3_vch_tpiA/4090470‑4090746
                                                                                                                                 |                                                                                                                                                   
aCCAATTTCCACGCCGCGCTTTTCCACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTc                                                                                                                                  >  2:35758/1‑149 (MQ=255)
          aCGCCGCGCTTTTCCACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTCACGCATGAGGCGCGACGGAACCAATCACACCAGGAATTTTAACTCCCTtgttggt                                                                                                                        >  1:168627/1‑145 (MQ=255)
          aCGCCGCGCTTTTCCACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGCCGGAACCAATCACACCAGGGATTTTCACTCCCTtgtgtgt                                                                                                                        >  1:168630/1‑149 (MQ=255)
                cgcTTTTCCACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTAt                                                                                                                  <  2:137800/149‑1 (MQ=255)
                       ccACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTAcc                                                                                                           <  1:35758/149‑1 (MQ=255)
                               gcccgACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTGTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGtt                                                                                                   <  2:169527/146‑1 (MQ=255)
                                 gctaCTGTTCGCGCCAATATCAATGAACATCTCTTCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGa                                                                                                 <  2:513230/146‑1 (MQ=255)
                                   gACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGc                                                                                                                      >  1:361497/1‑126 (MQ=255)
                                   gACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGc                                                                                                                      <  2:361497/126‑1 (MQ=255)
                                      tGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGCGTGCGTAGGGTTACCCGGTGGTTGAGCATc                                                                                            >  2:9141/1‑149 (MQ=255)
                                                          aaCATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACCCCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCGgccgcc                                                                        >  2:164797/1‑149 (MQ=255)
                                                            cATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCaa                                                                      <  2:460570/149‑1 (MQ=255)
                                                                 catcaAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAAtgggg                                                                 >  1:319736/1‑147 (MQ=255)
                                                                  atcaAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGCATGGTTACACGGTGGTTGATCAGCGCCTGCTTCCCCCCCCCGCCCAttgtag                                                                >  2:127572/1‑147 (MQ=255)
                                                                      aaTGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGGGGTaaa                                                            >  1:13467/1‑149 (MQ=255)
                                                                           cAGCGGTTGTTGCTTTTGCTTGTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCa                                                       <  2:518252/149‑1 (MQ=255)
                                                                                     tgcttttgctttTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGa                                                                                                 <  1:409643/97‑1 (MQ=255)
                                                                                     tgcttttgctttTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGa                                                                                                 >  2:409643/1‑97 (MQ=255)
                                                                                       cttttgtttttCCGTTAACGCATGAGGCGCGGCGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGctct                                           <  2:335980/149‑1 (MQ=255)
                                                                                             cttttGCGTTAACGCATTGGGCGCGACGGAACCAATCACACCAGGGATTTTCTCTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGa                                     <  2:174484/149‑1 (MQ=255)
                                                                                                  ccGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGATGTgg                                <  1:80555/149‑1 (MQ=255)
                                                                                                  ccGGTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGATGTgg                                <  1:485875/149‑1 (MQ=255)
                                                                                                                ggCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGGGGTAAAACGCAGAAAACCGCTCTCGTCGATGTGGGTGACCATAAAGcc                  >  1:88311/1‑149 (MQ=255)
                                                                                                                 gcgcGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCCTCGACTGATTCCACCAGCCGCCGATGGTGGTAAAACGCAGAAAACCGCTCACGTTGATGTGGGTGACCATAACGCCg                 >  2:172328/1‑149 (MQ=255)
                                                                                                                               aTCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGATGTGGGTGACCATAAAGCCGACTTCATCCATATg   >  1:471007/1‑149 (MQ=255)
                                                                                                                                tCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGATGTGGGTGACCATAAAGCCGACTTCATCCATATGt  >  1:355966/1‑149 (MQ=255)
                                                                                                                                 |                                                                                                                                                   
ACCAATTTCCACGCCGCGCTTTTCCACCTCTTCGCGACTGTTCGCGCCAATATCAATGAACATCTCATCAAATGACAGCGGTTGTTGCTTTTGCTTTTCCGTTAACGCATGAGGCGCGACGGAACCAATCACACCAGGGATTTTCACTCCCTTGTGTGTGCGTATGGTTACCCGGTGGTTGAGCATCGACTGATTCCACCAGCCGCCAATGGTGGTAAAACGCAGAAAACCGCTCTCGTCGATGTGGGTGACCATAAAGCCGACTTCATCCATATGT  >  NC_000913_3_vch_tpiA/4090470‑4090746

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.