Not a member of Pastebin yet?
Sign Up,
it unlocks many cool features!
- ID CU098_000001
- FT DOMAIN 1 361 NON CYTOPLASMIC.
- //
- ID CU098_000002
- FT DOMAIN 1 689 NON CYTOPLASMIC.
- //
- ID CU098_000003
- FT DOMAIN 1 23 CYTOPLASMIC.
- FT TRANSMEM 24 45
- FT DOMAIN 46 64 NON CYTOPLASMIC.
- FT TRANSMEM 65 87
- FT DOMAIN 88 98 CYTOPLASMIC.
- FT TRANSMEM 99 121
- FT DOMAIN 122 132 NON CYTOPLASMIC.
- FT TRANSMEM 133 153
- FT DOMAIN 154 164 CYTOPLASMIC.
- FT TRANSMEM 165 182
- FT DOMAIN 183 193 NON CYTOPLASMIC.
- FT TRANSMEM 194 218
- FT DOMAIN 219 236 CYTOPLASMIC.
- //
- ID CU098_000004
- FT DOMAIN 1 2847 NON CYTOPLASMIC.
- //
- ID CU098_000005
- FT DOMAIN 1 372 NON CYTOPLASMIC.
- //
- ID CU098_000006
- FT DOMAIN 1 547 NON CYTOPLASMIC.
- //
- ID CU098_000007
- FT DOMAIN 1 1018 NON CYTOPLASMIC.
- //
- ID CU098_000008
- FT DOMAIN 1 800 NON CYTOPLASMIC.
- //
- ID CU098_000009
- FT DOMAIN 1 783 NON CYTOPLASMIC.
- //
- ID CU098_000010
- FT DOMAIN 1 220 CYTOPLASMIC.
- FT TRANSMEM 221 247
- FT DOMAIN 248 252 NON CYTOPLASMIC.
- FT TRANSMEM 253 272
- FT DOMAIN 273 325 CYTOPLASMIC.
- FT TRANSMEM 326 352
- FT DOMAIN 353 363 NON CYTOPLASMIC.
- FT TRANSMEM 364 384
- FT DOMAIN 385 410 CYTOPLASMIC.
- FT TRANSMEM 411 431
- FT DOMAIN 432 461 NON CYTOPLASMIC.
- FT TRANSMEM 462 484
- FT DOMAIN 485 604 CYTOPLASMIC.
- FT TRANSMEM 605 622
- FT DOMAIN 623 633 NON CYTOPLASMIC.
- FT TRANSMEM 634 662
- FT DOMAIN 663 739 CYTOPLASMIC.
- //
- ID CU098_000011
- FT DOMAIN 1 338 NON CYTOPLASMIC.
- //
- ID CU098_000012
- FT DOMAIN 1 51 CYTOPLASMIC.
- FT TRANSMEM 52 69
- FT DOMAIN 70 71 NON CYTOPLASMIC.
- //
- ID CU098_000013
- FT DOMAIN 1 623 NON CYTOPLASMIC.
- //
- ID CU098_000014
- FT DOMAIN 1 140 NON CYTOPLASMIC.
- //
- ID CU098_000015
- FT DOMAIN 1 103 NON CYTOPLASMIC.
- //
- ID CU098_000016
- FT DOMAIN 1 455 NON CYTOPLASMIC.
- //
- ID CU098_000017
- FT DOMAIN 1 575 NON CYTOPLASMIC.
- //
- ID CU098_000018
- FT DOMAIN 1 342 NON CYTOPLASMIC.
- //
- ID CU098_000019
- FT DOMAIN 1 6 CYTOPLASMIC.
- FT TRANSMEM 7 24
- FT DOMAIN 25 43 NON CYTOPLASMIC.
- FT TRANSMEM 44 63
- def parsePhobiusSignalP(phobius, sigP, membrane_annot, secretome_annot):
- FT DOMAIN 64 74 CYTOPLASMIC.
- FT TRANSMEM 75 94
- FT DOMAIN 95 105 NON CYTOPLASMIC.
- FT TRANSMEM 106 126
- FT DOMAIN 127 137 CYTOPLASMIC.
- �
- from __future__ import division
- import os, subprocess, logging, sys, argparse, inspect, csv, time, re, shutil, datetime, glob, platform, multiprocessing, itertools, hashlib, math, types
- from natsort import natsorted
- import warnings
- from Bio import SeqIO
- with warnings.catch_warnings():
- warnings.simplefilter('ignore')
- from Bio import SearchIO
- from Bio import BiopythonWarning
- warnings.simplefilter('ignore', BiopythonWarning)
- #get the working directory, so you can move back into DB folder to find the files you need
- currentdir = os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe())))
- parentdir = os.path.dirname(currentdir)
- sys.path.insert(0,parentdir)
- DB = os.path.join(parentdir, 'DB')
- LIB = os.path.join(parentdir, 'lib')
- UTIL = os.path.join(parentdir, 'util')
- GeneMark2GFF = os.path.join(UTIL, 'genemark_gtf2gff3.pl')
- pref_colors=["#CF3C57","#65B23A","#6170DD","#D18738","#D542B5",
- "#724A63","#60AABA","#5DB07C","#6C5824","#D74B2B","#6B97D6","#893B2E",
- "#B68DB7","#564E91","#ACA13C","#3C6171","#436B33","#D84088",
- "#D67A77","#9D55C4","#8B336E","#DA77B9","#D850E5","#B188DF"]
- Nogs = {'NOG': 'All organisms (5.0GB)',
- 'aciNOG': 'Acidobacteria (125.3MB)',
- 'acidNOG': 'Acidobacteriia (75.4MB)',
- :1136
- FT TRANSMEM 138 161
- FT DOMAIN 162 172 NON CYTOPLASMIC.
- FT TRANSMEM 173 190
- FT DOMAIN 191 256 CYTOPLASMIC.
- FT TRANSMEM 257 278
- FT DOMAIN 279 292 NON CYTOPLASMIC.
- FT TRANSMEM 293 314
- FT DOMAIN 315 320 CYTOPLASMIC.
- FT TRANSMEM 321 340
- FT DOMAIN 341 351 NON CYTOPLASMIC.
- FT TRANSMEM 352 376
- FT DOMAIN 377 387 CYTOPLASMIC.
- FT TRANSMEM 388 407
- FT DOMAIN 408 418 NON CYTOPLASMIC.
- FT TRANSMEM 419 438
- FT DOMAIN 439 485 CYTOPLASMIC.
- //
- ID CU098_000020
- FT DOMAIN 1 348 NON CYTOPLASMIC.
- //
Add Comment
Please, Sign In to add comment