Running and Verifying Bowtie

Use PuTTY to log in to the server as the root user.
Run the following command to switch to the man_hg19 directory:
```
cd /path/to/CHROMFA/man_hg19/
```

Run the following commands to decompress the case files:

gzip -d SRR742200_1.fastq.gz
gzip -d SRR742200_2.fastq.gz

Run the following command to run Bowtie to obtain the .sam file (the corresponding biological sequence text xxx.fastq is required):
```
bowtie -S -t -q -p 128 man_index -1 ./SRR742200_1.fastq -2 ./SRR742200_2.fastq SRR742200_out.sam
```
The following is an example of the result:

Parent topic: Bowtie 1.2.3 Porting Guide (CentOS 7.6)