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xzhfood

荣誉版主 (著名写手)

[求助] 如何得到accession no和相似度的? 已有1人参与

看到一篇PANS上的文章,里面菌株测序后进行生物信息学分析,但是不知道里面的accession no和相似度如何得到的?
Direct cloning and refactoring of a silent lipopeptide biosynthetic gene cluster yields the antibiotic taromycin A
作者是这样描述的:

Bioinformatics Analysis of the tar Gene Cluster. The draft genome of Saccharomonospora sp. CNQ-490 was sequenced at the Joint Genome Institute (project ID: 407426). The bioinformatics program antiSMASH (http://antismash.secondarymetabolites.org/) (53) was initially used to analyze the whole genome sequence. The sequence of the orphan 67-kb NRPS gene cluster tar encoded on contig-9 (B126DRAFT_scaffold 9.10; 14,775–81,515 nt) was further analyzed and annotated using FramePlot 3.0 (54) (http://watson.nih.go.jp/~jun/cgi-bin/frameplot-3.0b.pl) and BLAST (http://blast.ncbi.nlm.nih.gov). The amino acid specificity codes for adenylation domains in NRPS enzymes were analyzed using NRPSpredictor2 (http://nrps.informatik.uni-tuebi ... ler?cmd=SubmitJob).

序列信息:见附件。




就是途中黑框所示的两列是如何得到的?谢谢,搞了好几天了,郁闷啊。如何得到accession no和相似度的?
Snap1.jpg
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xzhfood

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引用回帖:
2楼: Originally posted by lxj341401 at 2015-05-19 10:31:17
拿目标序列去NCB做BLAST分析,就会得到同源序列的accession no和相似度。

NCBI blast很熟悉了,blast 有5种方式,都试验了,就是难以得到表中所得到的序列,郁闷。
3楼2015-05-19 23:00:00
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lxj341401

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【答案】应助回帖

感谢参与,应助指数 +1
拿目标序列去NCB做BLAST分析,就会得到同源序列的accession no和相似度。
2楼2015-05-19 10:31:17
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