User: jth6974

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jth697410
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Posts by jth6974

<prev • 15 results • page 1 of 2 • next >
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Comment: C: two different scaffold which were connected in real genome. how can I verify?
... Thanks to you now I totally understood !! really thanks for your kindness~!! ...
written 10 months ago by jth697410
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two different scaffold which were connected in real genome. how can I verify?
... Yesterday I asked about same question and I got answer like below "If 2 sequences originate next to one another in the genome, you can PCR using primers that face toward the junction to amplify the missing sequence. When you sequence that via Sanger sequencing, if the fragment overlaps both contigs ...
assembly pcr written 11 months ago by jth697410 • updated 11 months ago by Joe15k
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Comment: C: How to check if two scaffolds were neighbored in genome using PCR?
... what is DNA template corresponding to missing sequence between two scaffolds? ...
written 11 months ago by jth697410
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Answer: A: How to check if two scaffolds were neighbored in genome using PCR?
... Even if I design primers that face toward the junction, amplification won't happen cause there is nothing between two sequences yet right? ...
written 11 months ago by jth697410
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Comment: C: How to check if two scaffolds were neighbored in genome using PCR?
... what is DNA template corresponding to gaps??? ...
written 11 months ago by jth697410
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Comment: C: How to check if two scaffolds were neighbored in genome using PCR?
... thank you !! you mean before PCR for filling the gap, do I have to be sure about those two sequences are adjacent in the real genome in advance? what should I do if I'm not sure about the order of sequences? ...
written 11 months ago by jth697410
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How can I check if two scaffolds were neighbored in genome using PCR?
... After finishing genome assembly I got a lot of scaffolds. and I found two scaffolds that were supposed to be connected. So I want to verify if those scaffolds are neighbored in genome. When I ask my professor, he said that I can check using PCR and if two scaffolds are got connected using PCR it mea ...
assembly pcr written 11 months ago by jth697410
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Comment: C: How come Alignment length is longer than Subject sequence length?
... but I want to explain about similarity using a table including Identity and Query coverage. If Query length = 497, Aln length = 531 and make a table with this, Query coverage is 100%? or 107%? cause if I write "Query coverage = 107%" in thesis, I think it might make people confused! How can I expla ...
written 11 months ago by jth697410
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what is Swiss-Prot comparison?
... I'm reading a paper about genome assembly and analysis. and it says "Swiss-Prot comparisons were done using protein BLAST alignments with BLAST+ (v2.3.0), e-value cut-off 1 × 10−5, -max_target_seqs 100, -max_hsps 1, and locally optimal Smith-Waterman alignments (-use_sw_tback)". what is Smith-Wate ...
swiss-prot comparison written 11 months ago by jth697410 • updated 11 months ago by Philipp Bayer6.5k
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Comment: C: How come Alignment length is longer than Subject sequence length?
... thanks!!! so nice example!! ...
written 11 months ago by jth697410

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