Gblocks

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界面

将exampleout.fas移入Gblocks.exe的根文件夹，注意序列文件的名称不能过长或者含有一些非法符号，不然会闪退。

******************************************************
                    GBLOCKS 0.91b
SELECTION OF CONSERVED BLOCKS FROM MULTIPLE ALIGNMENTS
        FOR THEIR USE IN PHYLOGENETIC ANALYSIS
******************************************************

o. Open File

b. Block Parameters

s. Saving Options

g. (Get Blocks)

q. Quit


Your Choice:

参数

选择o

Please enter a DNA or protein alignment in NBRF/PIR or FASTA format or a paths file.
File Name:

输入exampleout.fas

******************************************************
                   GBLOCKS 0.91b

SELECTION OF CONSERVED BLOCKS FROM MULTIPLE ALIGNMENTS

       FOR THEIR USE IN PHYLOGENETIC ANALYSIS


CURRENT FILE: exampleout.fas
t. Type Of Sequence: Protein
o. Open File
b. Block Parameters
s. Saving Options
g. Get Blocks
q. Quit



Your Choice:

此时可以选择b更改一些数值 BLOCK PARAMETERS

1. Minimum Number Of Sequences For A Conserved Position: . 21
2. Minimum Number Of Sequences For A Flank Position: ..... 34
3. Maximum Number Of Contiguous Nonconserved Positions: .. 8
4. Minimum Length Of A Block: ............................ 10
5. Allowed Gap Positions: ................................ None

r. Restore Defaults
g. Get Blocks

z. Extended Block Options
m. Go To Main Menu


Your Choice:

输入对应选项可以修改，也可以不修改，此处不修改，直接选择g

exampleout.fas
Original alignment: 1085 positions

Gblocks alignment:  81 positions (7 %) in 4 selected block(s)

此时根目录里exampleout.fas-gb.htm是保守区选择信息，将exampleout.fas-gb修改为exampleoutgb.fas或者其它以fas结尾的文件，得到了选择了保守区的序列。