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test.out
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Program: scan4prf
Version: v1.00
Author: Nicolas Moeri
Description: Compares a profile against a sequences database
Infinite negative score is -32768
Sequences database: sh3.seq
Profiles database: sh3.prf
Profile name: SH3
Profile description: Src homology 3 (SH3)
Cut-off value: normalized
Alignments results
==================
Sequence name Description Hits Score Position
-------------------------------------------------------------------------------
ABL1_CAEEL TYROSINE-PROTEIN KINASE ABL-1 (EC 1 459 1 - 39
ABL1_HUMAN PROTO-ONCOGENE TYROSINE-PROTEIN KI 1 857 61 - 121
BEB1_YEAST BEB1 PROTEIN. 1 734 43 - 107
CC25_YEAST CELL DIVISION CONTROL PROTEIN 25. 1 767 58 - 128
CICX_HUMAN DIHYDROPRYRIDINE-SENSITIVE L-TYPE, 1 556 100 - 161
GTPA_HUMAN GTPASE-ACTIVATING PROTEIN (GAP) (R 1 664 279 - 341
MSAB_HUMAN LAMBERT-EATON MYASTHENIC SYNDROME 1 571 114 - 175
MYSB_DICDI MYOSIN IB HEAVY CHAIN. 1 1048 1053 - 1111
NCF1_HUMAN NEUTROPHIL CYTOSOL FACTOR 1 (NCF-1 2 878 156 - 215
690 226 - 285
NCK_HUMAN CYTOPLASMIC PROTEIN NCK. 3 939 2 - 61
876 115 - 165
983 190 - 252
P85A_BOVIN PHOSPHATIDYLINOSITOL 3-KINASE REGU 1 760 3 - 79
PIP5_HUMAN 1-PHOSPHATIDYLINOSITOL-4,5-BISPHOS 1 887 769 - 829
SCD2_SCHPO SCD2 PROTEIN. 2 882 24 - 86
675 123 - 185
SEM5_CAEEL SEX MUSCLE ABNORMAL PROTEIN 5. 2 974 1 - 58
1093 154 - 213
SRC_CHICK PROTO-ONCOGENE TYROSINE-PROTEIN KI 1 1182 80 - 141
STE6_SCHPO STE6 PROTEIN. 1 600 1 - 60
VAV_HUMAN VAV ONCOGENE. 2 663 617 - 660
1015 783 - 843
YFJ4_YEAST HYPOTHETICAL 40.4 KD PROTEIN IN PE 1 1075 314 - 373
YHR4_YEAST HYPOTHETICAL 71.2 KD PROTEIN IN CD 2 742 493 - 555
779 577 - 633
ZO1_HUMAN TIGHT JUNCTION PROTEIN ZO-1. 1 512 504 - 572
Program: scan4prf
Version: v1.00
Author: Nicolas Moeri
Description: Compares a profile against a sequences database
Infinite negative score is -32768
Sequences database: CVPBR322
Profiles database: ecp.prf
Profile name: ECOLI_PROM_RP70
Profile description: E. coli RNA POL sigma
Cut-off value: 240
Alignments results
==================
Sequence name Description Hits Score Position
-------------------------------------------------------------------------------
CVPBR322 Cloning vector pBR322, complete ge 35 271 1 - 41
240 25 - 65
257 1589 - 1629
242 2274 - 2314
245 2296 - 2340
272 2931 - 2972
249 3207 - 3246
240 3233 - 3274
253 3240 - 3284
251 3350 - 3391
254 3788 - 3828
241 3796 - 3836
258 4133 - 4173
253 4166 - 4207
251 4187 - 4227
259 4273 - 4312
244 4291 - 4331
244 4299 - 4342
248 4348 - 4307
244 4336 - 4295
248 4323 - 4282
252 4232 - 4191
249 4178 - 4134
241 3954 - 3912
242 3861 - 3820
240 3569 - 3528
243 3464 - 3419
255 3301 - 3260
250 3273 - 3231
240 3267 - 3224
241 3250 - 3209
253 3216 - 3172
265 3131 - 3090
243 2318 - 2273
262 85 - 40
Program: srch4prf
Version: v1.00
Author: Nicolas Moeri
Description: Compares a sequence against a profiles database
Infinite negative score is -32768
Profiles database: prosite13.prf
Sequences database: GTPA_HUMAN
Sequence name: GTPA_HUMAN
Sequence description: GTPASE-ACTIVATING PR
Alignments results
==================
Profile name Description Hits Score Position
-------------------------------------------------------------------------------
C2_DOMAIN_2 GTPASE-ACTIVATING PROTEIN 1 680 594 - 676
PH_DOMAIN GTPASE-ACTIVATING PROTEIN 1 659 474 - 577
SH2 GTPASE-ACTIVATING PROTEIN 1 1450 181 - 272
SH3 GTPASE-ACTIVATING PROTEIN 1 664 279 - 341
GLOBIN GTPASE-ACTIVATING PROTEIN 1 196 993 - 999
RAS_GTPASE_ACTIV_2 GTPASE-ACTIVATING PROTEIN 1 3900 748 - 942
Program: srch4prf
Version: v1.00
Author: Nicolas Moeri
Description: Compares a sequence against a profiles database
Infinite negative score is -32768
Profiles database: ecp.prf
Sequences database: CVPBR322
Sequence name: CVPBR322
Sequence description: Cloning vector pBR32
Alignments results
==================
ECOLI_PROM_RP70 , Cloning vector pBR322, complete genome. , Hits: 7
-------------------------------------------------------------------------------
Score: 271 Position: 1 - 41
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
TTCTCATGTTTGACAGCTTATCATC----GATAAGCTTTAATGCG
Score: 257 Position: 1589 - 1629
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
CAACATGAATGGTCTTCGGTTTCCG----TGTTTCGTAAAGTCTG
Score: 272 Position: 2931 - 2972
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
ACAGAGTTCTTGAAGTGGTGGCCTA---ACTACGGCTACACTAGA
Score: 258 Position: 4133 - 4173
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
ACGGAAATGTTGAATACTCATACTC----TTCCTTTTTCAATATT
Score: 259 Position: 4273 - 4312
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
AAGTGCCACCTGACGTCTAAGAAAC-----CATTATTATCATGAC
Score: 265 Position: 3131 - 3090
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
AGGATCTTCTTGAGATCCTTTTTTT----CTGCGCGTAATCTGCT
Score: 262 Position: 85 - 40
*********TTGACA*********************TATAAT***
|||||||||||||||| ||||||||||||||
ACACGGTGCCTGACTGCGTTAGCAATTTAACTGTGATAAACTACC