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: pF1KB8465, 126 aa
  1>>>pF1KB8465 126 - 126 aa - 126 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.1742+/-0.000363; mu= 11.7364+/- 0.023
 mean_var=65.2845+/-13.217, 0's: 0 Z-trim(113.7): 14  B-trim: 393 in 1/51
 Lambda= 0.158734
 statistics sampled from 23095 (23103) to 23095 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.656), E-opt: 0.2 (0.271), width:  16
 Scan time:  3.770

The best scores are:                                      opt bits E(85289)
NP_004166 (OMIM: 601062) small nuclear ribonucleop ( 126)  823 196.7 8.2e-51
NP_001265585 (OMIM: 601062) small nuclear ribonucl ( 126)  823 196.7 8.2e-51
NP_036453 (OMIM: 607284) U6 snRNA-associated Sm-li ( 139)  216 57.7 6.2e-09
NP_008869 (OMIM: 601063) small nuclear ribonucleop ( 119)  195 52.9 1.5e-07
NP_001239058 (OMIM: 607284) U6 snRNA-associated Sm ( 125)  185 50.6 7.8e-07


>>NP_004166 (OMIM: 601062) small nuclear ribonucleoprote  (126 aa)
 initn: 823 init1: 823 opt: 823  Z-score: 1033.3  bits: 196.7 E(85289): 8.2e-51
Smith-Waterman score: 823; 100.0% identity (100.0% similar) in 126 aa overlap (1-126:1-126)

               10        20        30        40        50        60
pF1KB8 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 VYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRGMGRGN
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 VYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRGMGRGN
               70        80        90       100       110       120

             
pF1KB8 IFQKRR
       ::::::
NP_004 IFQKRR
             

>>NP_001265585 (OMIM: 601062) small nuclear ribonucleopr  (126 aa)
 initn: 823 init1: 823 opt: 823  Z-score: 1033.3  bits: 196.7 E(85289): 8.2e-51
Smith-Waterman score: 823; 100.0% identity (100.0% similar) in 126 aa overlap (1-126:1-126)

               10        20        30        40        50        60
pF1KB8 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 VYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRGMGRGN
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 VYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRGMGRGN
               70        80        90       100       110       120

             
pF1KB8 IFQKRR
       ::::::
NP_001 IFQKRR
             

>>NP_036453 (OMIM: 607284) U6 snRNA-associated Sm-like p  (139 aa)
 initn: 241 init1: 114 opt: 216  Z-score: 281.4  bits: 57.7 E(85289): 6.2e-09
Smith-Waterman score: 216; 33.3% identity (62.6% similar) in 123 aa overlap (5-125:2-115)

               10        20        30        40        50          
pF1KB8 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDG-RVAQLE
           .:...:. :..: .  : ..::.: :.:.  .. :: .. ..  : ::: .  .. 
NP_036    MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMP
                  10        20        30        40        50       

      60        70        80        90       100       110         
pF1KB8 QVYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRG-MGR
       . ::::: :..: .::      ..  .:..  ..: :::    :. :   .::: :  ::
NP_036 ECYIRGSTIKYLRIPD-----EIIDMVKEEVVAKGRGRGG---LQQQKQQKGRGMGGAGR
        60        70             80        90          100         

      120                             
pF1KB8 GNIFQKRR                       
       : .:  :                        
NP_036 G-VFGGRGRGGIPGTGRGQPEKKPGRQAGKQ
     110        120       130         

>>NP_008869 (OMIM: 601063) small nuclear ribonucleoprote  (119 aa)
 initn: 191 init1: 128 opt: 195  Z-score: 256.4  bits: 52.9 E(85289): 1.5e-07
Smith-Waterman score: 195; 32.5% identity (63.2% similar) in 117 aa overlap (7-119:4-115)

               10        20        30        40        50        60
pF1KB8 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQ
             .. : .   . :: : ..:   .: .  .. .:: ... . .: .. . .::: 
NP_008    MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLET
                  10        20        30        40        50       

               70        80            90       100       110      
pF1KB8 VYIRGSKIRFLILPDMLKNAPML----KSMKNKNQGSGAGRGKAAILKAQVAARGRGRGM
       . :::..::..:::: :    .:     ..:.:.. . ::::.     ..  .:::::: 
NP_008 LSIRGNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVAGRGR-----GRGRGRGRGRGR
        60        70        80        90       100            110  

        120      
pF1KB8 GRGNIFQKRR
       :::       
NP_008 GRGGPRR   
                 

>>NP_001239058 (OMIM: 607284) U6 snRNA-associated Sm-lik  (125 aa)
 initn: 210 init1:  83 opt: 185  Z-score: 243.7  bits: 50.6 E(85289): 7.8e-07
Smith-Waterman score: 185; 34.6% identity (60.7% similar) in 107 aa overlap (21-125:4-101)

               10        20        30        40        50          
pF1KB8 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDG-RVAQLE
                           : ..::.: :.:.  .. :: .. ..  : ::: .  .. 
NP_001                  MLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMP
                                10        20        30        40   

      60        70        80        90       100       110         
pF1KB8 QVYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRG-MGR
       . ::::: :..: .::      ..  .:..  ..: :::    :. :   .::: :  ::
NP_001 ECYIRGSTIKYLRIPD-----EIIDMVKEEVVAKGRGRGG---LQQQKQQKGRGMGGAGR
            50             60        70           80        90     

      120                             
pF1KB8 GNIFQKRR                       
       : .:  :                        
NP_001 G-VFGGRGRGGIPGTGRGQPEKKPGRQAGKQ
          100       110       120     




126 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 13:10:39 2016 done: Fri Nov  4 13:10:40 2016
 Total Scan time:  3.770 Total Display time: -0.020

Function used was FASTA [36.3.4 Apr, 2011]