RosalindPt1.py

__author__ = 'ssen'

def countingNtV2(s):
    return s.count('A'), s.count('C'),s.count('G'),s.count('T')
def countingNt(s):
    numA = 0
    numC = 0
    numG = 0
    numT = 0

    for i in range(0,len(s)):
        if (s[i]=='A'):
            numA += 1
        elif(s[i]=='C'):
            numC += 1
        elif(s[i]=='G'):
            numG += 1
        else:
            numT += 1
    print str(numA) + ' ' + str(numC) + ' ' + str(numG) + ' ' + str(numT)

def generateRnaFromDna(s):
    return s.replace('T','U')

def reverseComplement(s):
    s=s.upper().replace('A', 't').replace('C', 'g').replace('G','c').replace('T','a').upper()[::-1]
    return s

def reverseComplementV2(s):
    revComp = ""
    for i in range(len(s)-1,-1,-1):
        if (s[i]=='A'):
            revComp += 'T'
        elif(s[i]=='C'):
            revComp += 'G'
        elif(s[i]=='G'):
            revComp += 'C'
        else:
            revComp += 'A'
    return revComp

countingNt('TCCAGTCTGTCCTGTTTTATTGCTCGATCACGGCGGTCTTAAGTGGCTTGACTTTTGGCTGCAATCCTTGAGTTTGACGGATGGTATAATAGGAAACTAGTGTGTCAGCCCTTGCCACGTGTTCTTCCTTATGGTCTCTCCATCCTTGAAAGGTTCATTATCGTCGTTAGTCTGCGAGAACGACTAACTTCAACCACGACAGATTACGTACTGGGATATGACTCCAAGGTCTAAGACTTTCTTACACCGAGCCCTACTCAGTCCTGCGTGCCAGTCTCGGCAGTGCCCATCCGGGTTTGAATTGAAGGACCCCTCCGCTAGTCGGCCACTACGTACCGCATCCGACACATTCTTTCCAAGAATGTCCGATGAGTTAGGGTATTGAAAATGACAAGCTCAGATTGTGCGACCCCGAGACGCCGCTAATGAAGACTGTATTTTGAGACTCCGGGCTGCTTTGATTTCTATCGCCCTGGGTACCCTCGCACCTGTCGGGACCATTAGTTACACCGGGACGGTTCTGTAATCAGTTAAGACAAACCAGTGCTGTCGGTGAATTCGAGGGCTCGCGTACTAGATCCATGTCCGTCGTACATGTCCTTTGGGGGTGGCCTCAGCCTCCTCCCAGCCATGGACGCTTACAGGGTCTTAGCAGAGGCACGCGCTTGCAACACCATACGTAATGGATGACCTCACCCTCCGCTCGTTATGAGGGTAAAGATCCGTACGATTAGATGCCACCAATTGTCACATAGGGGACAGAAAATGCTAGATACTGCGTGCATACCTACATATCGCGAGTGGTATTCCTTC')
print countingNtV2('TCCAGTCTGTCCTGTTTTATTGCTCGATCACGGCGGTCTTAAGTGGCTTGACTTTTGGCTGCAATCCTTGAGTTTGACGGATGGTATAATAGGAAACTAGTGTGTCAGCCCTTGCCACGTGTTCTTCCTTATGGTCTCTCCATCCTTGAAAGGTTCATTATCGTCGTTAGTCTGCGAGAACGACTAACTTCAACCACGACAGATTACGTACTGGGATATGACTCCAAGGTCTAAGACTTTCTTACACCGAGCCCTACTCAGTCCTGCGTGCCAGTCTCGGCAGTGCCCATCCGGGTTTGAATTGAAGGACCCCTCCGCTAGTCGGCCACTACGTACCGCATCCGACACATTCTTTCCAAGAATGTCCGATGAGTTAGGGTATTGAAAATGACAAGCTCAGATTGTGCGACCCCGAGACGCCGCTAATGAAGACTGTATTTTGAGACTCCGGGCTGCTTTGATTTCTATCGCCCTGGGTACCCTCGCACCTGTCGGGACCATTAGTTACACCGGGACGGTTCTGTAATCAGTTAAGACAAACCAGTGCTGTCGGTGAATTCGAGGGCTCGCGTACTAGATCCATGTCCGTCGTACATGTCCTTTGGGGGTGGCCTCAGCCTCCTCCCAGCCATGGACGCTTACAGGGTCTTAGCAGAGGCACGCGCTTGCAACACCATACGTAATGGATGACCTCACCCTCCGCTCGTTATGAGGGTAAAGATCCGTACGATTAGATGCCACCAATTGTCACATAGGGGACAGAAAATGCTAGATACTGCGTGCATACCTACATATCGCGAGTGGTATTCCTTC')

print generateRnaFromDna('ACGGCCAAACAATGTTCGTCTTTACTGATGGAGGATACCCTCTCCCCGACCGAGCCGGTTGGGGACACTCGTCATCATCCTGGGGATGTCTGGTTTTTGCCCCCTCCATTCCTCTCTTAGCGAGGTCGCACCGTGAAGCTCATTAAGGAGAACTACTCCGCCCTGGTGCCACGGGGGGAGCCTTGATTTGGGGAACGTTCCGCAATACCGCGAGAATTATCGTTATACCCGCGTTTGCCCGAAATGTTAACAGTGTACGTGGACAACGGGACAGGACCGGCTATATTAGATTTTGTTGGAATAATATTTTATGGTGTCTTGAAGCGAACCCGGCGCTCGTCATTATGTAGCACATCTCGAATGCAATTTACTCTAGTGTAGCTGCTCTTTTCCAATCAAGCCTCTGGGTCTCTATCTATACAGCGAGTATCTCACGATCCCTTATCTTCACCGTTGCTCCGACAGGCGCCCGTCGTAAGTATGCGCGCTATCAGCATTCCCTATTGATGTCACCGTGAGGCGAGTGGGCCGAATCCTAGAGTCATAAGACTCGGTTATTCGGATACGCTATGGACCTTCTACGAAAGCAGGTCACCATACTCGTACAGTTAGGTAAACATCCGTCGCATCGTCGCAGGGTGACCTTCCTGCCGGCTCGTGCAAGAGGCTGGGGATGAAGTTTCGACTTTCGTTCCATCCTTATATAGGATTGAGTATAATTCGACTTCCACGACGTTGAGCTAAGCGATCCGCGCACTGTTGCATGTCTGGCTGAAGGGATCTCTATGGACCCTCGAGAGTGGCCCATAGAGCCATATCCGGAAGTCGTAAGCATCGTCTGAACACTCAAAATCACTGGCGTAAGCTTAAAGGGTTGCCACTCCGGGGAGTATAGGTACGCGGAGCTTCTTGTTGTCGGGCGCTTGCTAATTCCTGGACTTGCTACAATGGAACACGGCATTTGCCTGTGTGACACT')

print (reverseComplementV2('AAAACCCGGT'))
print (reverseComplementV2('GGCACTTGACTCTCCCCACAGTAGCGTCAATGATAACTGGCAGTCGCCCTTCTGGCACAAATTTCCTATGATCACCCTCATATGGCTAATTTGATACCGGGAGCACTTACCGGCTCTTGAGAGCTACATCACTCCTCATGGGCAGCTGTTGGTGGATTAACCTGCAGATTTGCTATTGTAAGCGAAGTACTAGTATTGTAACTCTAATTCTGAGATACCCGCCAACACTAAAACCGTGGCTCCCCTGACCTAGTGTAGAAGATCACCGTTTTCGGTCCTGCGCGTGCAGTATCCTCTGGTAGACACACATTACATTGCTCGCGGAAATAGCAACTGTTCGTTTTGAATGGGACTTACCTGAGGACTGATTAGAGATGCCCAGCTTAAAAGCCCCGCGAGACGAGACTGGAGCTCCGGTCAGAACCCCTTGTCCAAGATGAAAAGAACGACCCGACAGCGTAAACGAAATAACTTCTTATATCACATTCGGTGATGTGAGTACTCGCCTGTTCGTTTACACCCATTGATGCGGTAGAGGATATTCGTAGAAGATTGGCGTGGCCGACGTCATGAACGTGTTGTGGGCATTAGTTTGGTTTGTGAGAGTAAGTGCTAGTTATCCGATTTCCATAATCAGTCGTCGAAAACATGTGATGTGACCTGGATGGATAGAAGTCCAGTATCCGAAGTCCCAAATACAGCCCTGCTGAGAGGATTCCGCCATGCGAGTCCGACATGTGCCGTAGTAATACAGATCATCACACATCTTATTGGGTGCTCCTGAGACTCCCAATTATTCTCCAGTCCAATATTCCGACCGGCGGCTGACACAGTTTCCTTTGATACTCACAAGTCCCTGGACTGCATGCGGGTGTACATCTCACCGAACTTTGAGTCATCGTACAAGGTTGGTACTATCCCTTATGAAC'))