How to rectify mirdeep.pl error?

0

Entering edit mode

5.4 years ago

nivya.james2016 • 0

Hi all,

Could you help me rectify this error?

mkdir mirdeep_runs/run_13_12_2018_t_16_20_32
#testing input files
#testing input files
started: 16:20:33
sanity_check_mature_ref.pl /home/shanthi/Desktop/Nivya/miRBase/mature_human_miRNA1.fa
Error: problem with /home/shanthi/Desktop/Nivya/miRBase/mature_human_miRNA1.fa
Error in line 5.309: The sequence
contains characters others than [acgtunACGTUN]
Please check your file for the following issues:
I.  Sequences are allowed only to comprise characters [ACGTNacgtn].
II. Identifiers are not allowed to have withespaces.

Thanking You in Advance

mirdeep2.pl • 901 views

ADD COMMENT • link updated 5.4 years ago by finswimmer 16k • written 5.4 years ago by nivya.james2016 • 0

1

Entering edit mode

Hello,

how does /home/shanthi/Desktop/Nivya/miRBase/mature_human_miRNA1.fa look at line 5309?

You see this easily with sed -n '5309p' /home/shanthi/Desktop/Nivya/miRBase/mature_human_miRNA1.fa

fin swimmer

ADD REPLY • link 5.4 years ago by finswimmer 16k

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