python - 提取两个子字符串之间匹配的字符串部分

Question

我有三个包含一组字符串的文件。 File1 和 File2 包含 File3 的子字符串。我想从 File3 中减去位于 File1 和 File2 的子字符串之间的字符串。请看下面我的例子:

文件 1(子字符串 1):

 head(fivep$V2)
[1] UGAGGUAGUAGUUUGUACAGUU  UGAGGUAGUAGUUUGUGCUGUU  ACAUACUUCUUUAUAUGCCCAUA UAGCAGCACAUCAUGGUUUACA 
[5] GGGUUCCUGGCAUGCUGAUUU   AGAGCUUAGCUGAUUGGUGAAC 

文件 2(子字符串 2)

 head(threep$V2)
[1] ACUGUACAGGCCACUGCCUUGC CUGCGCAAGCUACUGCCUUGCU UGGAAUGUAAAGAAGUAUGUAU CGAAUCAUUAUUUGCUGCUCUA
[5] AUCACAUUGCCAGGGAUUACC  UUCACAGUGGCUAAGUUCUGC 

文件3

head(hairpin$V2)
[1] UACACUGUGGAUCCGGUGAGGUAGUAGGUUGUAUAGUUUGGAAUAUUACCACCGGUGAACUAUGCAAUUUUCUACCUUACCGGAGACAGAACUCUUCGA
[2] AUGCUUCCGGCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAUUGAUGCUUCACACCUGGGCUCUCCGGGUACCAGGACGGUUUGAGCAGAU     
[3] AAAGUGACCGUACCGAGCUGCAUACUUCCUUACAUGCCCAUACUAUAUCAUAAAUGGAUAUGGAAUGUAAAGAAGUAUGUAGAACGGGGUGGUAGU   
[4] UAAACAGUAUACAGAAAGCCAUCAAAGCGGUGGUUGAUGUGUUGCAAAUUAUGACUUUCAUAUCACAGCCAGCUUUGAUGUGCUGCCUGUUGCACUGU 
[5] CGGACAAUGCUCGAGAGGCAGUGUGGUUAGCUGGUUGCAUAUUUCCUUGACAACGGCUACCUUCACUGCCACCCCGAACAUGUCGUCCAUCUUUGAA  
[6] UCUCGGAUCAGAUCGAGCCAUUGCUGGUUUCUUCCACAGUGGUACUUUCCAUUAGAACUAUCACCGGGUGGAAACUAGCAGUGGCUCGAUCUUUUCC  

例子:

                                 String in File1                       String in  File2
                              AGGGCUUAGCUGCUUGUGAGCA                   UUCACAGUGGCUAAGUUCCGC
String in File3      CUGAGGAGCAGGGCUUAGCUGCUUGUGAGCAGGGUCCACACCAAGUCGUGUUCACAGUGGCUAAGUUCCGCCCCCCAG

这个例子的输出:

GGGUCCACACCAAGUCGUG

Answer 1

在 Perl 中你可以试试这个代码:

use strict;
use warnings;

my $file1 = "AGGGCUUAGCUGCUUGUGAGCA";
my $file2 = "UUCACAGUGGCUAAGUUCCGC";
my $file3 = "CUGAGGAGCAGGGCUUAGCUGCUUGUGAGCAGGGUCCACACCAAGUCGUGUUCACAGUGGCUAAGUUCCGCCCCCCAG";

my ($result) = $file3 =~ /$file1(.*?)$file2/;

print $result;

输出:

GGGUCCACACCAAGUCGUG