FASTA searches a protein or DNA sequence data bank 36.3.4 Apr, 2011
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: pF1KE1726, 236 aa
  1>>>pF1KE1726 236 - 236 aa - 236 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 11.1510+/-0.000338; mu= -9.8699+/- 0.021
 mean_var=330.1772+/-67.303, 0's: 0 Z-trim(125.4): 2  B-trim: 0 in 0/61
 Lambda= 0.070583
 statistics sampled from 49025 (49027) to 49025 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.843), E-opt: 0.2 (0.575), width:  16
 Scan time:  8.250

The best scores are:                                      opt bits E(85289)
NP_001030312 (OMIM: 603819) steroid receptor RNA a ( 236) 1607 175.8 5.5e-44
NP_001240693 (OMIM: 603819) steroid receptor RNA a ( 208)  694 82.8 4.9e-16


>>NP_001030312 (OMIM: 603819) steroid receptor RNA activ  (236 aa)
 initn: 1607 init1: 1607 opt: 1607  Z-score: 910.6  bits: 175.8 E(85289): 5.5e-44
Smith-Waterman score: 1607; 100.0% identity (100.0% similar) in 236 aa overlap (1-236:1-236)

               10        20        30        40        50        60
pF1KE1 MTRCPAGQAEVEMAELYVKPGNKERGWNDPPQFSYGLQTQAGGPRRSLLTKRVAAPQDGS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MTRCPAGQAEVEMAELYVKPGNKERGWNDPPQFSYGLQTQAGGPRRSLLTKRVAAPQDGS
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE1 PRVPASETSPGPPPMGPPPPSSKAPRSPPVGSGPASGVEPTSFPVESEAVMEDVLRPLEQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 PRVPASETSPGPPPMGPPPPSSKAPRSPPVGSGPASGVEPTSFPVESEAVMEDVLRPLEQ
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE1 ALEDCRGHTRKQVCDDISRRLALLQEQWAGGKLSIPVKKRMALLVQELSSHRWDAADDIH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 ALEDCRGHTRKQVCDDISRRLALLQEQWAGGKLSIPVKKRMALLVQELSSHRWDAADDIH
              130       140       150       160       170       180

              190       200       210       220       230      
pF1KE1 RSLMVDHVTEVSQWMVGVKRLIAEKRSLFSEEAANEEKSAATAEKNHTIPGFQQAS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 RSLMVDHVTEVSQWMVGVKRLIAEKRSLFSEEAANEEKSAATAEKNHTIPGFQQAS
              190       200       210       220       230      

>>NP_001240693 (OMIM: 603819) steroid receptor RNA activ  (208 aa)
 initn: 760 init1: 689 opt: 694  Z-score: 408.9  bits: 82.8 E(85289): 4.9e-16
Smith-Waterman score: 718; 59.8% identity (68.1% similar) in 229 aa overlap (13-236:1-208)

               10        20        30        40        50          
pF1KE1 MTRCPAGQAEVEMAELYVKPGNKERGWNDPPQFSYGLQTQAGGPRRSLLTKRVAAPQDG-
                   :::::::::.. :        . : .   :  :   :.  .  ::   
NP_001             MAELYVKPGERSRR-----ARALGCRPGLGWGRLRRLVWTLCLPQPQY
                           10             20        30        40   

        60        70        80        90       100         110     
pF1KE1 --SPRVPASETSPGPPPMGPPPPSSKAPRSPPVGSGPASGVEPTS--FPVESEAVMEDVL
         . .  :  : :.:: ..    .. . ::  .:  :   ..: .  .:  :     :  
NP_001 KLTVEFRARFTHPSPP-QATRNAAGTTRRSSHTGCRP-RPADPGARCLPRGSPHPRMD--
            50         60        70         80        90           

         120       130       140       150       160       170     
pF1KE1 RPLEQALEDCRGHTRKQVCDDISRRLALLQEQWAGGKLSIPVKKRMALLVQELSSHRWDA
        : :           :::::::::::::::::::::::::::::::::::::::::::::
NP_001 -PPE-----------KQVCDDISRRLALLQEQWAGGKLSIPVKKRMALLVQELSSHRWDA
      100                  110       120       130       140       

         180       190       200       210       220       230     
pF1KE1 ADDIHRSLMVDHVTEVSQWMVGVKRLIAEKRSLFSEEAANEEKSAATAEKNHTIPGFQQA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 ADDIHRSLMVDHVTEVSQWMVGVKRLIAEKRSLFSEEAANEEKSAATAEKNHTIPGFQQA
       150       160       170       180       190       200       

        
pF1KE1 S
       :
NP_001 S
        




236 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sun Nov  6 21:31:20 2016 done: Sun Nov  6 21:31:21 2016
 Total Scan time:  8.250 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]