DNA-Transition-Transversion-Analysis-Python/TransitionTransversion.py at main · FathimaNufla2000/DNA-Transition-Transversion-Analysis-Python · GitHub

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s1='GCAACGCACAACGAAAACCCTTAGGGACTGGATTATTTCGTGATCGTTGTAGTTATTGGAAGTACGGGCATCAACCCAGTT'
s2='TTATCTGACAAAGAAAGCCGTCAACGGCTGGATAATTTCGCGATCGTGCTGGTTACTGGCGGTACGAGTGTTCCTTTGGGT'
#Method_1---------------------------------------------------------------------
transition=0
for i in range(len(s1)):
    if s1[i]=='A' and s2[i]=='G' :
        transition+=1
    elif s1[i]=='C' and s2[i]=='T' :
        transition+=1
    elif s1[i]=='G' and s2[i]=='A' :
        transition+=1
    elif s1[i]=='T' and s2[i]=='C' :
        transition+=1

print('No of transition : ',transition)

transversion=0
for i in range(len(s1)):
    if (s1[i]=='A' and s2[i]=='C') or (s1[i]=='A' and s2[i]=='T') :
        transversion+=1
    elif (s1[i]=='G' and s2[i]=='C') or (s1[i]=='G' and s2[i]=='T') :
        transversion+=1
    elif (s1[i]=='C' and s2[i]=='A') or (s1[i]=='C' and s2[i]=='G') :
        transversion+=1
    elif (s1[i]=='T' and s2[i]=='A') or (s1[i]=='T' and s2[i]=='G') :
        transversion+=1

print('No of transversion : ',transversion)

t=transition/transversion
print('ratio : ',t)

#Method_2---------------------------------------------------------------------

transition = 0
transversion = 0

for x in range(0,len(s1)):
    first = s1[x]
    second = s2[x]

    if(first == 'A' and second == 'G') or (first == 'G' and second == 'A'):
        transition += 1
    elif(first == 'C' and second == 'T') or (first == 'T' and second == 'C'):
        transition += 1
    elif(first == 'A' and second == 'C') or (first == 'C' and second == 'A'):
        transversion += 1
    elif(first == 'A' and second == 'T') or (first == 'T' and second == 'A'):
        transversion += 1
    elif(first == 'G' and second == 'C') or (first == 'C' and second == 'G'):
        transversion += 1
    elif(first == 'G' and second == 'T') or (first == 'T' and second == 'G'):
        transversion += 1

print("No of Transition",transition)
print("No of Transversion",transversion)

t=transition/transversion
print('ratio : ',t)