#$----------------------------------------------------------------------------$

#PYTHON LAB $4$: LISTS

#$----------------------------------------------------------------------------$

print$("$

########## PART $1$ ##########

$")$

#PART $1-$ Append substrings to a list

#$(1)$ Use a or loop to iterate through a sequence.

#$(2)$ Divide the sequence into sections of $3$ DNA bases with NO OVERLAP.

#$(3)$ Append the $3-$base codons to a list.

#$[$NOTE: If a group is not $3$ bases long, do not include it in the list.$]$

#$(4)$ Print the final list.

#$==$ PART $1==$

#seq$=$"AUGGGAAGC" #This should print $["$AUG$",$"GGA","AGC"$]$

seq$=$"AUGGGAAGCGCGG" #This should print $["$AUG$",$"GGA","AGC","GCG$"]$

#Here is a little snippet of code that should help.

#It uses a for loop to 'break up$\text{'}$ a string into groups of $3$ characters

# like with codons. Question $-$ how do you then append then to a list?

seq$=$"AUGGGAAGC"

for i in range$(0,$len$($seq$),3)$:

codon$=$seq$[$i:i$+3]$

print$($codon$)$

#$-------------------------------------------------------------------------------$

print$("$

########## PART $2$ ##########

$")$

#PART $2-$ Change the length of the substrings

# Exactly the same as part $1$ EXCEPT instead of $3-$characters

# it can be of length x$,$ where x is an integer.

# For example if x$=4,$ then if seq$=$'AAAAGGGGCCCC' the loop would print

# $[\text{'}$AAAA$\text{'},\text{'}$GGGG$\text{'},\text{'}$CCCC$\text{'}]$

# Feel free to copy past and modify the loop from part $1$

#$==$ PART $2==$

#Try it out with two different values of x and two different sequences

x$=4$

#x$=5$

seq$=$"AAAAGGGGCCCC"

#seq$=$"AUGUAUGUCUGUCUGAUC"

#$------------------------------------------------------------------------------$

print$("$

########## PART $3$ ##########

$")$

#PART $3-$ Use random.shuffle to randomize student names and write them to a file

#$(1)$ Open a file for writing called "select$\_$students.txt$"$

#$(2)$ Use a for loop and range function to loop $20$ times.

#$(3)$ Each time shuffle the names of the students and write the

## shuffled names to a file.

students$=[\text{'}$Jane$\text{'},$ 'Klaus','Julia','Moon Unit', 'Frantz', 'Seamus'$]$

#to convert students to a string for writing use the str$()$ function.

#$------------------------------------------------------------------------------$

print$("$

########## PART $4$ ##########

$")$

#PART $4-$ Iterate through a list of strings, calculate value, write to file

#$(1)$ Iterate through the list of sequences

#$(2)$ Count G$\text{'}$s and C$\text{'}$s for each sequence nmer in a list.

#$(3)$ Calculate the GC Percentage for the sequence nmer.

#$(4)$ Write the sequence and its GC percentage $($separated by a "Tab"$)$

# to a file named:

# gc$\_$output.txt

###A counting shortcut for string data:

seq$=$"AGGT"

g$\_$count$=$seq.count$("$G$")$

print$($g$\_$count$)$

#For example if given the following sequence list

#seq$\_$list$=["$AAUG$",$"AGCG","GCUA"$]$

#The loop would write the following to the file gc$\_$output.txt

#AAUG $25\mathrm{.}0$

#AGCG $75\mathrm{.}0$

#GCUA $50\mathrm{.}0$

#$==$ PART $4==$

seq$\_$list$=["$AAUG$",$"AGCG","GCUA"$]$

#seq$\_$list$=["$AAUGGAGACU$",$"AGCGCCCC","GCUAAAAAAU"$]$

Dont use chatgpt please!