Python 最大连续字数
考虑以下薰衣草DNA序列:Python 最大连续字数,python,python-3.x,list,cs50,dna-sequence,Python,Python 3.x,List,Cs50,Dna Sequence,考虑以下薰衣草DNA序列: GCTAAATTTGTTCAGCCAGATGTAGGCTTACAAATCAAGCTGTCCGCTCGGCACGGCCTACACACGTCGTGTAACTACAACAGCTAGTTAATCTGGATATCACCATGACCGAATCATAGATTTCGCCTTAAGGAGCTTTACCATGGCTTGGGATCCAATACTAAGGGCTCGACCTAGGCGAATGAGTTTCAGGTTGGCAATCAGCAACGCTCGCCATCCGGACGACGGCTTACAGT
GCTAAATTTGTTCAGCCAGATGTAGGCTTACAAATCAAGCTGTCCGCTCGGCACGGCCTACACACGTCGTGTAACTACAACAGCTAGTTAATCTGGATATCACCATGACCGAATCATAGATTTCGCCTTAAGGAGCTTTACCATGGCTTGGGATCCAATACTAAGGGCTCGACCTAGGCGAATGAGTTTCAGGTTGGCAATCAGCAACGCTCGCCATCCGGACGACGGCTTACAGTTAGTAGCATAGTACGCGATTTTCGGGAAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGAATGTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCTATCCCGTCAACTCATTCACACCGCATCCTTTCCTGCCACTGTAACTAGTCGACTGGGGAACCTCATCATCCATACTCTCCCACATTATGCCTCCCAACCTTGTTAAGCGTGGCATGCTTGGGATTGCATTGATGCTTCTTGGAGAGGACGCTTTCGTTTTGGAGATTACAGGGATCCAATTTTATCATCGGTTCGACTCCCGTAACGACTTAGCAGTAAGGGTGCTAGTTCCTGGTTAGAATCTTAATAAATCACGTCGCTTGGAGCAAGACAAAGATCGTCGTAATGCCAAGTGCACGACCACCTTCAGACTTGCAGGACCCGTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTTCTCGATAGCTATGCGGTTCAATACAATCTTAACGCAATGCAGCGATGTGGTTTCGTACACTTAGCATAAAACCCCCCACATTAAATCGATGTACCCGCCCTCTTAGACGCCAATTTCAATGCCGAACCTCCGGCGGGTATCTCTGCACTAGGAGAAGTAGCACGTCGCTGTAGCGAACTCCTATCGTGAGATAATTTGTAGAGCTGCTCTTATAATACAATAGCTCAGATGGATTATTCCATGGACATCCCCGTGCGTTGTTTCGAGGATGGTAGGTGGAAATTTTGCCAGACCTCTAGTCTTAAACATGGTTGACGTTATAGGCGCTATCTCTTGCGTCTGGAAGTGTTAATCCGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAACACGCAACTCTGGAGGAGGGCACTGCACTGCAAACTTGCGTAATATCCTTCACCCACACTTGCCTGGCCTCCTTGCTTAAAGCTCTGGCGATGCGATTTTTCGGCCCAGTAGCTGAATAGGTCATGAAATGGGCACCGAACTGGAAAGACCCATATATTCGATACTCACAACTTAATGATAGCGCGATTAAGAGCGACACCAAAAACCAAATTACGTTCACGAACCTTTGAGAGTCAAGGAGACTTAGACCGAATTGAATGATCACTGATGCGCCCGCTGATACTGAGCCTCACCATTAATCGCCGACCAATACGGCGTGTACCGGGCGCGGCCTTGCCGCATAACGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTACACAGCCCCGTCCTCATTGCTAAGTGCACTGGCAACTGGACCTAAAGATTTTTCGAGTATGGCCCTCGAATCAAGCGCCCACCCAGAAACCTACGAGCCAGTAACCCCAGTAAACAAGCATTAGTGCTATATGCTTGCTGCCCACTAGGACCCTTATGGTTCATACCAGGGTGACGTGTCTTGCGGGCCAAGGATGAACCAGAAGCAAGATCCTTAGATGGACGACTGTCTCATTGCTTAAACTCCACATACCAAAGGGCGCGGTAAACGATAGTTTTAGGTAATGTTAGTCGGATGGTTGTCTGCAGCTACCAATACAGCCTGGCACCCAGGGTCTGAACAATAACGCGTGAGAGCAGCTCTCCCGCGTGTGGTGGATTTGCCGTCTATGAAATTGAGGCTCTTGCAACTATTCGCACTCGGAATGCCCTCATATCTGGTGCCTAGCGGCCTTTGCCCCGTGCCGGTAGGACTAAACTCTACGGATCGTTGACGGATCTCGATGTGGAAGATGGTTATGAAAGATAACAACGCGTGTGCTAATTGATTTAGACAAGTATTGCGGCAGTAAAAGATAATCGGCTGCAGAGTTACGAAAGACTTCCATGCATGGATTCCATTCCTTCTAGTATAGGACCCACTCTGAATACACGTCTTGCGGGCCGATCATCTCCACCGCTGCGGAAGAAAGCAATTAAGAATCTATGCTCATTAAGAGTGCGACTATAATGCGGATCTTACAGTGCTAATGATCAGGACGTCGTCCAAGCAGGCTGCATGCCGAATTTAGCTTACGTCAGGATCAGGCGTTATAGCCTGGGAATCGGACTATGAGGACGCCACGACCTCTGGGAGAAAGCTATATACATTGAGGATCGCGCCATCTTTATGAGACTCAAATGAATCTAGATAGGTAGCATTGCGGACTTGAGTTAGCACATCGGTATTGGAAGGTGAGGGTCCTGCCGCTCGTTCTATGTTCGGTTTATAGTATACAAATAGGTCATCCCGAACGTTGAAGTTAAACTCATGACACGTTGTCGTAATGAAACGGGCCTGTTATTAGGGATACAGACAAAAGGCACAAGCTGGCTTGCACATTAAGGCGCACTAGAGATCCTCACAACCGTTGCCCGCACGGAGGTCGTGTCTAACAGACAGTGAACCAGCCGTATTGGGGTGGATGACCTGAGCTTCTTGGGGCCTGTTGTACACCGCGTGTGGTTCAACTGGTACACATACTACGAATATTCGAAATCATTGTACTGTGCTCTTCGGTGCTACTGACTGTGAGCGAATGCATCCCAATCCCAAACAATGCTTGTGGTAGGAGAATTGAAACTCTCGAAGCCTGGCCCAATGTCATCTACTTTTAACATGTCGGGCCAGGAGTTACGGGCATTGCTTACTTACTTTGCCCCCTTACACCACAGCAGCGCGATTCTTGTTGTAGTAGATTTTATACGACTCGCGAATTAAATGGAACTTGTCTGTCCCATATCGATCGTGTCCATCGTAAGATGAGATTGTAGGAGCATTCGGAAGTCTATGCGGCCCAGGGACTACTACGTTAAATCTGGTCAGACGTGGTTTACAAGGCGTCCCGATCTTCTCAGAACATATGGGAAAGCACTACCGTTCCTTCACGCATACAGTTGTTCGTGCCGAACGAGTAAGCTTGCGACCAGCCCACCCGCTAGGGCTATGCAGCGGGTCATGGCTGGCGCCATACTGTGCGGACAACCCACGCTCTGGCAGAAAGCGTCTTGTGTTTTGTAGTAGCTCCAACGGTTAGACCTTCGATATCTATTCAGAGCGCGAGCGACCACTATTAGACGGCATGTAAACAATGTGTATTTGTTCGGCCCAACCGGTATATGGGTAAGACCGCGAAGGGCCTGCGCGAATACCAGCGTCCAAAAATTCCTCACCCGAGATATGCGGTTAGTACCCCTTGGGTAACGGTCCGCTACGGGTAGCGACGCGAGCCGGCCGCATCGGTTGGAGCCGAGTTGTCGGGCAGGCGAGTAACGTGTGCAATTTGATGGGCCCAAGCCTCCGGCACTATCCACCTCATACATCGACAAAAGCACCAAATATGGGGAAAAGCTGAGCGTCGATATGTACATCTACCCAGGAACCGGCCCGAACATTAGGCGGACGTGAATTTCCGACCTAGGTTCGGCTACATTTCTACGATCCAAGCACACGTGAAGGAGGAGGGGTGTTCCGACCGTAAATGAACGAGGTGCGCAGTGACCCGATGGCGTTTAGCGGATAGCCTTCCTATGCCGGCCTATGCTGTATGGTAGTTGGTTGGTGCCTCCAGAGCCACTGCACCCAATCATAGGGTCTACAGCAGCGTACTTATAAAATTGTACGGGTGACCCATATCCATTACGGGTTGCGACCAGTATAGGAGAGTATAACTGCGTGAACTAATGCGTTATGACGCTTCAGAGTTTGCTCGGGCCCGAGTTCTAGGGCTATAATGTGTTAGGGCGCAAGTATGCCAAGCTAAGATGTGGCGTGCACACTAGGAGTTGTGTTCCTCTGCAAGCAGACACGAGCACTCTGGCAGTAGTTTGACCACACCCGGGTATCACTGCTACTCCATTTCGAACAAGCTATTGGAGCGGACAAAATATGCTACTCAAGAGCATTAGTTATAGGTCTACGAGACAGAAGCAGTTACTGAGTCTGAATATTCGATATAAGTAGGCATGGAGGCGGAGCAAAACAACGTCTGCGATCAATCGTGTTGATGACGTATGGCGACTGGAAGGTAAGGACTATGGCCGGACGGAATGATTCATGTTCTGTTCAAAGCTATATTTCGAAGGGGTATATTAGCGGTCCTACACTTGGTTAGCACCCTCCCCCCTCTGGATCCTGCACTAATTCGAGCTGGCCTCCATCGGTATCAGTCCGGAAGCTCCACTCTCTATCGTAGTCCTAATCAACAGGGTGCCAGTTTGCTCACGTGGAAGTTTGAGGCCCTTTGTGCTCCATAGCCAATCACTAACCATGCACGCGCGACCCACTCTACGTCCAGATCGGCTATAATAGTTGCGCCCGGGACTGGCAGAGTAGACATGTAAGCTAGATAGAGCCCCGACATCGGCCAAGAGATCCTACGCTGCTTCCAGATAATGAGAGACATTCTAGCATTAGACATGCAAGTCGGCAGGGACTCCCCTTATCTAGTAATTTCGATGAATTGGTTTTTCGGCTAGCATCTAGTCTAGTCTAGTCTAGTCTAGTCTAGTCTAGTCTAGTCTAGTCTAGTCTAGTCTAGACCATGCCGACCTCATCATAGAAGGAATGCTCTAAACTTAGAGTGCTACTAGGAAAACTATTAATCAATGATCGTCCTGCTTACATAGCTGGACGGCGAAAGTTCTTATACTGCGGAGGTTGCTGACGTAGAGTGCGCTGGGTACAGCGGATAAGTTGATCAGGGTGGGGATAGGGTGGCTCACCGTTTATACTCATATAGATTCCTGGCGTCGACGCTGTGACAGGGTCGAGATCGAGGGGGAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGATCAGCGGAGCGGAGGGAAAATTATCACCAGAGGGTAGGGGCTCGCGACATTCTATTCAATGCATTTCAAGCTACTTACGTATTTCGGCACAGTGACTACTGCCTGCGCGGCAGCCGTAAGGTTTCCCGTCAATAGGTGGCACGTATCATTGATGAAAGTGTCAGCTAATCATTCAGGCCTTA
这本字典呢
sqc_large_dictionary = ["AGATC","TTTTTTCT","AATG","TCTAG","GATA","TATC","GAAA","TCTG"]
这就是我们必须在Lavender的DNA序列中寻找的单词
问题是,例如,我使用re和collections创建了一个检测所有AATG的算法(66)。但是规范告诉我,我应该只计算最长的连续序列,在本例中是43,因为其他的序列都是浇水的,但是有43个AATG,一个在另一个后面,这是我应该取的数字。我如何实现这一点呢?如果你能将序列按元素分割,得到如下结果:
lst = ['ATG','ATG','ATG','ATG','ATG','asd','ATG']
您可以使用:
from itertools import groupby
for a, g in groupby(lst):
print(a, len(list(g)))
ATG 5
asd 1
ATG 1
你可以得到所有的序列,然后分组,最后得到最大值
>>> sequences = re.findall(str.join('|',sqc_large_dictionary),l)
>>> groups = [(k,len(list(grp))) for k,grp in itertools.groupby(sequences)]
>>> max(groups, key=lambda x:x[1])
('GAAA', 47)
要获得每个序列类型的最大值,可以执行以下操作:
>>> res = defaultdict(int)
>>> for k,v in groups:
... res[k] = max(res[k], v)
...
>>> res
defaultdict(<class 'int'>, {'TCTG': 41, 'GATA': 27, 'AATG': 42, 'GAAA': 47, 'TATC': 19, 'AGATC': 23, 'TTTTTTCT': 33, 'TCTAG': 12})
res=defaultdict(int)
>>>对于k,v分组:
... res[k]=最大值(res[k],v)
...
>>>res
defaultdict(,{'TCTG':41,'GATA':27,'AATG':42,'GAAA':47,'TATC':19,'AGATC':23,'TTTTTT CT':33,'TCTAG':12})
l是带有dna序列的字符串mmm,这对我来说很有用,但由于某些原因,数据库中的某些数字与1个数字不匹配。根据我的数据库:薰衣草AGATC 22 TTTTTT CT 33 AATG 43 TCTAG 12 GATA 26 TATC 18 GAAA 47 TCTG 41