Hello,
I am trying to use bowtie to align sanger human DNA reads on hg19. The command line I have used is:
./bowtie -p 1 -m 20 --best --sam hg19 ../Task/Source/454reads_test.fastq ../Task/Source/454reads_test.sam
and I got the following report:
# reads processed: 84205
# reads with at least one reported alignment: 0 (0.00%)
# reads that failed to align: 84205 (100.00%)
No alignments
The sequences seem unusually long, 300-400bases.
And actually, I am not sure if I should use hg19 as prebuild index. There several indexes fir H. Sapian.
Could any one please help me with this alignment?
Thank you very much in advance.
Heidi
I am trying to use bowtie to align sanger human DNA reads on hg19. The command line I have used is:
./bowtie -p 1 -m 20 --best --sam hg19 ../Task/Source/454reads_test.fastq ../Task/Source/454reads_test.sam
and I got the following report:
# reads processed: 84205
# reads with at least one reported alignment: 0 (0.00%)
# reads that failed to align: 84205 (100.00%)
No alignments
The sequences seem unusually long, 300-400bases.
And actually, I am not sure if I should use hg19 as prebuild index. There several indexes fir H. Sapian.
Could any one please help me with this alignment?
Thank you very much in advance.
Heidi
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