Predicted mutation
evidence seq id position mutation annotation gene description
MC JC NC_000913_3_vch_pgi 1,299,499 Δ1,199 bp intergenic (+254/‑485) ychE → / → oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913_3_vch_pgi 1299499–1300697 1300697 1–1199 29 [0] [0] 29 ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_vch_pgi = 12994980 (0.000)29 (1.630) 27/280 0.0 100% intergenic (+253/‑1684) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
?NC_000913_3_vch_pgi 1300698 = 0 (0.000)intergenic (+1453/‑484) ychE/oppA UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

GATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGT  >  NC_000913_3_vch_pgi/1300556‑1300840
                                                                                                                                              |                                                                                                                                              
aattacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataataa                                                                                                                                          <  1:40978‑M2/7‑1 (MQ=255)
      actgagttattaggatttccttatttgcttttcctttacattatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctctgctacaggtaagtgctaaATAATAATCAAtt                                                                                                                                    <  2:101375‑M2/13‑1 (MQ=255)
               taaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaattgctaaATAATAATCAATTGTTAAttta                                                                                                                           >  2:243145‑M2/128‑149 (MQ=255)
                 aggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAattatt                                                                                                                         <  1:297919‑M2/24‑1 (MQ=255)
                       tccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCAt                                                                                                                   >  1:185303‑M2/120‑149 (MQ=255)
                         cttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCAttt                                                                                                                 <  1:184325‑M2/32‑1 (MQ=255)
                                    ctcctcgccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaatgccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGaa                                                                                                      <  2:188929‑M2/43‑1 (MQ=255)
                                                 tgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaa                                                                                         >  2:117540‑M2/94‑149 (MQ=255)
                                                  gttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagagtaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaaa                                                                                        >  2:279471‑M2/93‑149 (MQ=255)
                                                           gccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACAt                                                                               >  1:171914‑M2/84‑149 (MQ=255)
                                                                 tcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATCCTTAg                                                                         >  1:136812‑M2/78‑149 (MQ=255)
                                                                            ggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTTACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTAt                                                              <  2:99371‑M2/83‑1 (MQ=255)
                                                                            ggcttgatgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCAATACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTAt                                                              <  2:99557‑M2/83‑1 (MQ=255)
                                                                                     aagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGattgaa                                                     >  1:176353‑M2/58‑149 (MQ=255)
                                                                                               gaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGAtg                                           >  1:199119‑M2/48‑149 (MQ=255)
                                                                                                aaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgatt                                                        >  2:164967‑M2/47‑135 (MQ=255)
                                                                                                aaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgatt                                                        <  1:164967‑M2/89‑1 (MQ=255)
                                                                                                       attattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTaa                                   <  1:183777‑M2/110‑1 (MQ=255)
                                                                                                        ttattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAg                                  >  2:287701‑M2/39‑149 (MQ=255)
                                                                                                         tattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTCTTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAgg                                 >  1:176837‑M2/38‑149 (MQ=255)
                                                                                                                  cactgcctttggaagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGc                        <  2:220031‑M2/121‑1 (MQ=255)
                                                                                                                     tgcctttggtagaggaaagtgctaaCTAATAATCAATTGTTAAATTGTTGTGCATTTCACTACTGGACCTGTAATCAGAAAAGACAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAAATGTTTGTTAAGGCATGGGTGCAAg                     >  1:292775‑M2/26‑149 (MQ=255)
                                                                                                                      gcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGc                    <  1:122390‑M2/125‑1 (MQ=255)
                                                                                                                             gtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATAGAATTGAAAGATTTTTATTAATGCATGGAGGCCACCTATACAt             >  2:113127‑M2/18‑149 (MQ=255)
                                                                                                                               agaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTc           <  1:199203‑M2/134‑1 (MQ=255)
                                                                                                                                gaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCGGAAAAGATAGACATGCTTAGCCAATCTCTATTACATTGAAGTGAAAGATGTTTGTTAAAGCATGGATGCAAGAGTTAGATTCt          >  1:85408‑M2/15‑149 (MQ=255)
                                                                                                                                gaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGAAACTGTAATCAGAAAATATAGACATGCATAGCCAACAACTATTTAATTGAATTGAAAAATGTTTGTTAAGGCATCGATGCAAGCTGTAGATTCt          >  2:140252‑M2/15‑149 (MQ=255)
                                                                                                                                  ggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGa        <  1:221222‑M2/137‑1 (MQ=255)
                                                                                                                                        tgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGt  >  1:118390‑M2/7‑149 (MQ=255)
                                                                                                                                              |                                                                                                                                              
GATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGT  >  NC_000913_3_vch_pgi/1300556‑1300840

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: