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: pF1KB6779, 119 aa
  1>>>pF1KB6779 119 - 119 aa - 119 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.3416+/-0.000375; mu= 12.1501+/- 0.023
 mean_var=101.0865+/-20.236, 0's: 0 Z-trim(115.8): 42  B-trim: 973 in 2/50
 Lambda= 0.127564
 statistics sampled from 26456 (26495) to 26456 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.69), E-opt: 0.2 (0.311), width:  16
 Scan time:  3.100

The best scores are:                                      opt bits E(85289)
NP_008869 (OMIM: 601063) small nuclear ribonucleop ( 119)  771 151.3 3.5e-37
NP_001278845 (OMIM: 601063) small nuclear ribonucl (  78)  338 71.4 2.6e-13
NP_001265585 (OMIM: 601062) small nuclear ribonucl ( 126)  195 45.3   3e-05
NP_004166 (OMIM: 601062) small nuclear ribonucleop ( 126)  195 45.3   3e-05


>>NP_008869 (OMIM: 601063) small nuclear ribonucleoprote  (119 aa)
 initn: 771 init1: 771 opt: 771  Z-score: 788.5  bits: 151.3 E(85289): 3.5e-37
Smith-Waterman score: 771; 100.0% identity (100.0% similar) in 119 aa overlap (1-119:1-119)

               10        20        30        40        50        60
pF1KB6 MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSI
               10        20        30        40        50        60

               70        80        90       100       110         
pF1KB6 RGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGRGGPRR
       :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 RGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGRGGPRR
               70        80        90       100       110         

>>NP_001278845 (OMIM: 601063) small nuclear ribonucleopr  (78 aa)
 initn: 328 init1: 328 opt: 338  Z-score: 360.1  bits: 71.4 E(85289): 2.6e-13
Smith-Waterman score: 419; 65.5% identity (65.5% similar) in 119 aa overlap (1-119:1-78)

               10        20        30        40        50        60
pF1KB6 MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSI
       ::::::::::::::::::::::::::::::                              
NP_001 MKLVRFLMKLSHETVTIELKNGTQVHGTIT------------------------------
               10        20        30                              

               70        80        90       100       110         
pF1KB6 RGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGRGGPRR
                  ::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 -----------DSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGRGGPRR
                          40        50        60        70        

>>NP_001265585 (OMIM: 601062) small nuclear ribonucleopr  (126 aa)
 initn: 191 init1: 128 opt: 195  Z-score: 215.3  bits: 45.3 E(85289): 3e-05
Smith-Waterman score: 195; 32.5% identity (63.2% similar) in 117 aa overlap (4-115:7-119)

                  10        20        30        40        50       
pF1KB6    MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLET
             .. : .   . :: : ..:   .: .  .. .:: ... . .: .. . .::: 
NP_001 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
               10        20        30        40        50        60

        60        70        80        90       100            110  
pF1KB6 LSIRGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRG-----RGRGRGRGRGR
       . :::..::..:::: :    .:     ..:.:.. . ::::..     .  .:::::: 
NP_001 VYIRGSKIRFLILPDMLKNAPML----KSMKNKNQGSGAGRGKAAILKAQVAARGRGRGM
               70        80            90       100       110      

                 
pF1KB6 GRGGPRR   
       :::       
NP_001 GRGNIFQKRR
        120      

>>NP_004166 (OMIM: 601062) small nuclear ribonucleoprote  (126 aa)
 initn: 191 init1: 128 opt: 195  Z-score: 215.3  bits: 45.3 E(85289): 3e-05
Smith-Waterman score: 195; 32.5% identity (63.2% similar) in 117 aa overlap (4-115:7-119)

                  10        20        30        40        50       
pF1KB6    MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLET
             .. : .   . :: : ..:   .: .  .. .:: ... . .: .. . .::: 
NP_004 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
               10        20        30        40        50        60

        60        70        80        90       100            110  
pF1KB6 LSIRGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRG-----RGRGRGRGRGR
       . :::..::..:::: :    .:     ..:.:.. . ::::..     .  .:::::: 
NP_004 VYIRGSKIRFLILPDMLKNAPML----KSMKNKNQGSGAGRGKAAILKAQVAARGRGRGM
               70        80            90       100       110      

                 
pF1KB6 GRGGPRR   
       :::       
NP_004 GRGNIFQKRR
        120      




119 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 23:59:26 2016 done: Fri Nov  4 23:59:26 2016
 Total Scan time:  3.100 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]