遺伝子のDNAの共通部分配列
バージョン7の関数であるLongestCommonSequenceとLongestCommonSubsequenceに,位置を加味したLongestCommonSequencePositionsとLongestCommonSubsequencePositionsが加わった.
Y染色体のランダムな遺伝子のDNA配列を比較する.
In[1]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_32.png)
genes = RandomSample[GenomeData["ChromosomeYGenes"], 4]
Out[1]=
![](assets.ja/common-dna-subsequence-of-genes/O_40.png)
この遺伝子をペアごとにグループ化する.
In[2]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_33.png)
With[{subsets = Subsets[genes, {2}]},
Table[pair[i] = subsets[[i]], {i, 1, Length[subsets]}]];
各ペアに共通の最長DNA配列の位置を配列自体とともに求める関数を定義する.
In[3]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_34.png)
commonDNASubequence[{g1_, g2_}] :=
With[{d1 = GenomeData[g1], d2 = GenomeData[g2]}, {{g1, g2},
LongestCommonSubsequencePositions[d1, d2],
LongestCommonSubsequence[d1, d2]}]
最初のペアの最長共通部分列.
In[4]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_35.png)
commonDNASubequence[pair[1]]
Out[4]=
![](assets.ja/common-dna-subsequence-of-genes/O_41.png)
2番目のペアの最長共通部分列.
In[5]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_36.png)
commonDNASubequence[pair[2]]
Out[5]=
![](assets.ja/common-dna-subsequence-of-genes/O_42.png)
3番目のペアの最長共通部分列.
In[6]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_37.png)
commonDNASubequence[pair[3]]
Out[6]=
![](assets.ja/common-dna-subsequence-of-genes/O_43.png)
4番目のペアの最長共通部分列.
In[7]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_38.png)
commonDNASubequence[pair[4]]
Out[7]=
![](assets.ja/common-dna-subsequence-of-genes/O_44.png)
5番目のペアの最長共通部分列.
In[8]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_39.png)
commonDNASubequence[pair[5]]
Out[8]=
![](assets.ja/common-dna-subsequence-of-genes/O_45.png)
6番目のペアの最長共通部分列.
In[9]:=
![Click for copyable input](assets.ja/common-dna-subsequence-of-genes/In_40.png)
commonDNASubequence[pair[6]]
Out[9]=
![](assets.ja/common-dna-subsequence-of-genes/O_46.png)