Python - make string equal length

Question

I have a RNA sequence of varying length. Max length of the sequence is 22. Some sequences are shorter. So if a sequence is shorter then add "0" to the end of the line till the length becomes 22.

How to do it in python? this is my input

AAGAUGUGGAAAAAUUGGAAUC

CAGUGGUUUUAUGGUAG

CUCUAGAGGGUUUCUG

UUCAUUCGGC

and my expected ouput should be for example in the last line it does not contain 22 characters so i need to make it 22 by adding zero to it

UUCAUUCGGC000000000000

but as per your commands i am getting out put as AAGAUGUGGAAAAAUU 00000 the addtional characters used for justification came down and not in the same line

I see you're reading the lines from a file, use rstrip() to strip the newline characters('\n') first: s.rstrip().ljust(22, '0') — Ashwini Chaudhary
– Ashwini Chaudhary, Commented Apr 22, 2014 at 11:04

Ashwini Chaudhary · Accepted Answer · 2014-04-22 10:11:35Z

17

Use str.ljust method:

>>> s = 'foobar'
>>> s.ljust(22, '0')
'foobar0000000000000000'

answered Apr 22, 2014 at 10:11

Ashwini Chaudhary

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6 Comments

ramko Over a year ago

@Aswini Chaudhary : but one more problem is when i tried to use them in the code and print the extra zero are printed in next line and not appended to the line for line in file: if not line.startswith (">"): if len(line) > 22: # maximum length of the miR sequence pass else: for line1 in line: print line.ljust(22,'0'); and the output came like AAGAUGUGGAAAAAUU 00000 AAGAUGUGGAAAAAUU 00000

Ashwini Chaudhary Over a year ago

@ramko You shouldn't iterate over the string, simply do: line1.ljust(22,'0')

Ashwini Chaudhary Over a year ago

@ramko Please post your sample data and expected output in the question body, comments are not readable.

ramko Over a year ago

@ Aswini Chadhary : Posted as requested

Ashwini Chaudhary Over a year ago

@ramko stackoverflow.com/questions/23216512/… ;-)

|

sshashank124 · Accepted Answer · 2014-04-22 10:19:00Z

9

An alternative to @Aशwini चhaudhary's answer is:

s = '{0:0<22}'.format(s)

Example

s = 'hello'
s = '{0:0<22}'.format(s)

>>> print s
hello00000000000000000

Alternative

Or as शwini चhaudhary suggested, simply:

s = format(s, '0<22')

edited Apr 22, 2014 at 10:19

answered Apr 22, 2014 at 10:12

sshashank124

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1 Comment

sshashank124 Over a year ago

@Aशwiniचhaudhary, Thank you, I have included it in my answer.

shivam · Accepted Answer · 2023-04-04 09:19:29Z

0

you can try it using while loop. Lets say you have all the sequences in a list.

x=['AAGAUGUGGAAAAAUUGGAAUC','CAGUGGUUUUAUGGUAG','CUCUAGAGGGUUUCUG','UUCAUUCGGC']

now you can run a while loop on the length of the mrna sequence. This loop will check the length of mrna and will continue adding '0' at the end until the length of sequence is 22

new=''
for mrna in x:
    new=mrna
    while len(new)<22:
        new=new+'0'
    print(new)

while len(mrna)<22:
   mrna+'0'

output will be:

AAGAUGUGGAAAAAUUGGAAUC
CAGUGGUUUUAUGGUAG00000
CUCUAGAGGGUUUCUG000000
UUCAUUCGGC000000000000

answered Apr 4, 2023 at 9:19

shivam

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