| New junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | USA300TCH1516_ALE | = 2201286 | 152 (0.800) | 30 (0.190) | 16/136 | NT | 18.2% | intergenic (+16/+353) | kdpE/cshA | KDP operon transcriptional regulatory protein KdpE/DEAD‑box ATP‑dependent RNA helicase CshA |
| ? | USA300TCH1516_ALE | = 2201313 | 141 (0.870) | intergenic (+43/+326) | kdpE/cshA | KDP operon transcriptional regulatory protein KdpE/DEAD‑box ATP‑dependent RNA helicase CshA | |||||
Only 100 of 303 total aligned reads displayed.
CATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTT > USA300TCH1516_ALE/2201196‑2201376 | cATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATC > 2:813465‑M1/1‑91 (MQ=255)cATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATC < 1:2248903‑M1/91‑1 (MQ=255) tGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGc < 1:1910824/91‑1 (MQ=255) aGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTg > 2:2017033/1‑91 (MQ=255) ggACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGc < 1:3170972/91‑1 (MQ=255) aCGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCa < 1:1158910/91‑1 (MQ=255) aCGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCa < 1:3795473/91‑1 (MQ=255) cGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCAt < 1:924539/91‑1 (MQ=255) gCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCAtt > 2:1423601/1‑91 (MQ=255) cAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTa > 2:1683797/1‑91 (MQ=255) aaaGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTaaa > 2:368713/1‑91 (MQ=255) aaaGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTaaa < 1:3480279/91‑1 (MQ=255) aGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACg < 2:1484895/91‑1 (MQ=255) gATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGa > 2:528890/1‑91 (MQ=255) atatTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGaa > 1:2956892/1‑91 (MQ=255) ttcttataaaaaacaatagggctttttgctgacgctagtgcgcgataaataataagttgaatATAAAAAAGATCGCTGCCATTAAACGAAt > 2:2633516‑M1/63‑91 (MQ=255) tattatTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAAt < 1:859990/91‑1 (MQ=255) tattatTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAAt > 1:3075163/1‑91 (MQ=255) attattAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATg > 1:1271185/1‑91 (MQ=255) ttattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGa > 1:584486/1‑91 (MQ=255) ttataaaaaacaatagggctttttgctgacgctagtgcgcgataaataataagttgaatATAAAAAAGATc < 2:1221984‑M1/12‑1 (MQ=255) ttataaaaaacaatagggctttttgctgacgctagtgcgcgataaataataagttgaatATAAAAAAGATCACTGCCATTAAACGAATGAt > 1:615178‑M1/60‑91 (MQ=255) tattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGAt > 2:1936259/1‑91 (MQ=255) tattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGAt > 1:3755661/1‑91 (MQ=255) tattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGAt > 2:3619692/1‑91 (MQ=255) tattaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGAt > 1:3410856/1‑91 (MQ=255) ttaAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatg < 2:1156436‑M1/91‑23 (MQ=255) ataaaaaacaatagggctttttgctgacgctagtgcgcgataaataataagaaaaaaAAAAAAAAGATCGCTGCCATTAAACGAATGATTg > 2:1300058‑M1/58‑91 (MQ=255) aaaaCACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGc > 1:2541119/1‑91 (MQ=255) aaCACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatggcag < 2:903137‑M1/91‑27 (MQ=255) aaCACATCCACGCATCGGTTATCAATCGTTGCAGTGGAAAGAGAAATAATTAAATAAAAGGGATCacggccaatcattcgtttaatggcag < 2:3356989‑M1/91‑27 (MQ=255) acacATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatggcagc < 1:1190329‑M1/91‑28 (MQ=255) acacATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGt < 2:2004876/91‑1 (MQ=255) cacaTCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatggcagcg < 1:207586‑M1/91‑29 (MQ=255) cacaTCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTg > 1:2671865‑M2/1‑90 (MQ=255) cacaTCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTg > 1:2787958‑M2/1‑90 (MQ=255) acaatagggctttttgctgacgctagtgcgcgataaataataagttgaatATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGa > 2:34795‑M1/51‑91 (MQ=255) caTCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatggcagcgat < 1:2008183‑M1/91‑31 (MQ=255) caTCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatggcagcgat < 2:2827399‑M1/91‑31 (MQ=255) ccACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGcc < 2:1641128/64‑1 (MQ=255) cACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTgatcttt > 1:513217‑M2/1‑84 (MQ=255) cACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTgatcttt < 1:1732792‑M2/91‑8 (MQ=255) cGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTgatcttttt > 2:1605186‑M2/1‑82 (MQ=255) cATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCactgccaatcattcgtttaatggcagcgatctttttta < 2:2082392‑M1/91‑39 (MQ=255) tGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTatat < 2:2563509/91‑1 (MQ=255) ggTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATAtt > 1:999024/1‑91 (MQ=255) gTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCtctgccattcattcgtttaatggcagcgatcttttttatttaa < 2:2228564‑M1/91‑44 (MQ=255) gTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTc > 1:3770483/1‑91 (MQ=255) gTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTc < 1:1293120/91‑1 (MQ=255) ttATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCa > 2:2328239/1‑91 (MQ=255) aTCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAAc > 1:1005539/1‑91 (MQ=255) ctagtgcgcgataaataataagttgaatATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACttatt > 1:3340498‑M1/29‑91 (MQ=255) tGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACttatta > 2:872304/1‑91 (MQ=255) tGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACttatta < 2:1357445/91‑1 (MQ=255) tGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACttatta < 1:1427698/91‑1 (MQ=255) ttGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTattatt < 2:3253698/91‑1 (MQ=255) tGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTAttattt < 2:1271185/91‑1 (MQ=255) gCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTAttattta > 1:3559086/1‑91 (MQ=255) cAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTAttatttat > 1:2228640/1‑91 (MQ=255) gTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATcg > 2:2513764/1‑91 (MQ=255) gAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCgcgc < 2:2324635/91‑1 (MQ=255) aaaGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCa > 2:3754393/1‑91 (MQ=255) aaaGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATCATTTATCGCGCa < 1:2993958/91‑1 (MQ=255) aaGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATC‑TTTTTATATTCAACTTATTATTTATCGCGCACt < 1:322577/91‑1 (MQ=255) agagAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACt > 2:2113661/1‑91 (MQ=255) agagAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACt < 1:1410165/91‑1 (MQ=255) aaaTAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACttatta < 1:2436867/74‑1 (MQ=255) aaaTAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACttatta > 2:2436867/1‑74 (MQ=255) aaaTAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCg > 2:279202/1‑91 (MQ=255) aataatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGCTCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGt > 2:3417110/1‑91 (MQ=255) aataatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGt < 1:1677764/91‑1 (MQ=255) ataatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTc > 1:1743174/1‑91 (MQ=255) ataatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTc > 2:2955131/1‑91 (MQ=255) ataatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTc > 1:3588349/1‑91 (MQ=255) ataatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTc > 1:679735/1‑91 (MQ=255) taatTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCa > 1:729163/1‑91 (MQ=255) atTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTgatcttttttatttaattatttctctttccactgcaacatttgataa < 1:1329251‑M2/91‑48 (MQ=255) ttAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCa < 1:2114479/91‑1 (MQ=255) aaataaaAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCaaa > 2:648069/1‑91 (MQ=255) ataaaAAAGATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaat > 1:1764466‑M1/1‑12 (MQ=255) ataaaAAAGATCGCTGCCATTAAACGAATGATTGGCAGTgatcttttttatttaattatttctctttccactgcaacatttgataaccaat < 1:745574‑M2/91‑53 (MQ=255) AAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGc > 1:813465‑M1/1‑91 (MQ=255) aaaaaGATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcg > 2:2730955‑M1/1‑9 (MQ=255) aaaaGATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgt < 2:1835414‑M1/91‑84 (MQ=255) aaaaGATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgt < 2:3033902‑M1/91‑84 (MQ=255) AAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGccc > 1:279202‑M1/1‑91 (MQ=255) aaaGATCGCTGCCATTAAACGAATGATTGGCAGTgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtg < 1:1223867‑M2/91‑58 (MQ=255) AAAGATCGCTGCCATTAAACGCATGATTGGCAGTGATCTTTTTTATATTCAACTTTTTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCt < 2:691362‑M1/91‑1 (MQ=255) AAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCt > 1:483813‑M1/1‑91 (MQ=255) aaGATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtgg < 2:1749485‑M1/91‑86 (MQ=255) aaGATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtgg > 1:2742820‑M1/1‑6 (MQ=255) aaGATCactgccaataattcgtttaatggcagcgatcttttttatttaattatttctcgttccactgcaacatatgataaccaatgcgtgg > 1:3317828‑M1/1‑6 (MQ=255) gATCactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgcggat > 1:34690‑M1/1‑4 (MQ=255) GATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTAATTATTTATCGCGCAATAGCGTCAGCAAAAAGCCCTAtt > 1:1835414‑M1/1‑91 (MQ=255) aTCGCTGCCATTAAACGAATGATTGGCAGTgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtggatg < 2:3388458‑M2/91‑62 (MQ=255) aTCGCTGCCATTAAACGAATGATTGGCAGTgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtggatg < 1:2007714‑M2/91‑62 (MQ=255) TCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGt < 2:3128136‑M1/91‑1 (MQ=255) TCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGt < 2:3830358‑M1/91‑1 (MQ=255) cactgccaatcattcgtttaatggcagcgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtggatgtg > 1:2790005‑M1/1‑1 (MQ=255) cGCTGCCATTAAACGAATGATTGGCAGTgatcttttttatttaattatttctctttccactgcaacatttgataaccaatgcgtggatgtg < 1:2193836‑M2/91‑64 (MQ=255) | CATGAGGACGCAAAAGATATTATTAAAACACATCCACGCATTGGTTATCAAATGTTGCAGTGGAAAGAGAAATAATTAAATAAAAAAGATCGCTGCCATTAAACGAATGATTGGCAGTGATCTTTTTTATATTCAACTTATTATTTATCGCGCACTAGCGTCAGCAAAAAGCCCTATTGTT > USA300TCH1516_ALE/2201196‑2201376 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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. |