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: pF1KB8276, 139 aa
  1>>>pF1KB8276 139 - 139 aa - 139 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.6832+/-0.000293; mu= 11.4847+/- 0.018
 mean_var=121.6015+/-25.004, 0's: 0 Z-trim(120.6): 19  B-trim: 1900 in 1/55
 Lambda= 0.116307
 statistics sampled from 35944 (35965) to 35944 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.779), E-opt: 0.2 (0.422), width:  16
 Scan time:  4.550

The best scores are:                                      opt bits E(85289)
NP_036453 (OMIM: 607284) U6 snRNA-associated Sm-li ( 139)  973 172.9 1.4e-43
NP_001239058 (OMIM: 607284) U6 snRNA-associated Sm ( 125)  881 157.5 5.9e-39
NP_004166 (OMIM: 601062) small nuclear ribonucleop ( 126)  216 45.9 2.3e-05
NP_001265585 (OMIM: 601062) small nuclear ribonucl ( 126)  216 45.9 2.3e-05


>>NP_036453 (OMIM: 607284) U6 snRNA-associated Sm-like p  (139 aa)
 initn: 973 init1: 973 opt: 973  Z-score: 903.2  bits: 172.9 E(85289): 1.4e-43
Smith-Waterman score: 973; 100.0% identity (100.0% similar) in 139 aa overlap (1-139:1-139)

               10        20        30        40        50        60
pF1KB8 MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECY
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_036 MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECY
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 IRGSTIKYLRIPDEIIDMVKEEVVAKGRGRGGLQQQKQQKGRGMGGAGRGVFGGRGRGGI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_036 IRGSTIKYLRIPDEIIDMVKEEVVAKGRGRGGLQQQKQQKGRGMGGAGRGVFGGRGRGGI
               70        80        90       100       110       120

              130         
pF1KB8 PGTGRGQPEKKPGRQAGKQ
       :::::::::::::::::::
NP_036 PGTGRGQPEKKPGRQAGKQ
              130         

>>NP_001239058 (OMIM: 607284) U6 snRNA-associated Sm-lik  (125 aa)
 initn: 881 init1: 881 opt: 881  Z-score: 820.4  bits: 157.5 E(85289): 5.9e-39
Smith-Waterman score: 881; 100.0% identity (100.0% similar) in 125 aa overlap (15-139:1-125)

               10        20        30        40        50        60
pF1KB8 MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECY
                     ::::::::::::::::::::::::::::::::::::::::::::::
NP_001               MLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECY
                             10        20        30        40      

               70        80        90       100       110       120
pF1KB8 IRGSTIKYLRIPDEIIDMVKEEVVAKGRGRGGLQQQKQQKGRGMGGAGRGVFGGRGRGGI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 IRGSTIKYLRIPDEIIDMVKEEVVAKGRGRGGLQQQKQQKGRGMGGAGRGVFGGRGRGGI
         50        60        70        80        90       100      

              130         
pF1KB8 PGTGRGQPEKKPGRQAGKQ
       :::::::::::::::::::
NP_001 PGTGRGQPEKKPGRQAGKQ
        110       120     

>>NP_004166 (OMIM: 601062) small nuclear ribonucleoprote  (126 aa)
 initn: 241 init1: 114 opt: 216  Z-score: 217.3  bits: 45.9 E(85289): 2.3e-05
Smith-Waterman score: 216; 33.3% identity (62.6% similar) in 123 aa overlap (2-115:5-125)

                  10        20        30        40        50       
pF1KB8    MLPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMP
           .:...:. :..: .  : ..::.: :.:.  .. :: .. ..  : ::: .  .. 
NP_004 MSIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDG-RVAQLE
               10        20        30        40        50          

        60        70             80        90          100         
pF1KB8 ECYIRGSTIKYLRIPD-----EIIDMVKEEVVAKGRGRGG---LQQQKQQKGRGMGGAGR
       . ::::: :..: .::      ..  .:..  ..: :::    :. :   .::: :  ::
NP_004 QVYIRGSKIRFLILPDMLKNAPMLKSMKNKNQGSGAGRGKAAILKAQVAARGRGRG-MGR
      60        70        80        90       100       110         

     110        120       130         
pF1KB8 G-VFGGRGRGGIPGTGRGQPEKKPGRQAGKQ
       : .:  :                        
NP_004 GNIFQKRR                       
      120                             

>>NP_001265585 (OMIM: 601062) small nuclear ribonucleopr  (126 aa)
 initn: 241 init1: 114 opt: 216  Z-score: 217.3  bits: 45.9 E(85289): 2.3e-05
Smith-Waterman score: 216; 33.3% identity (62.6% similar) in 123 aa overlap (2-115:5-125)

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

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

     110        120       130         
pF1KB8 G-VFGGRGRGGIPGTGRGQPEKKPGRQAGKQ
       : .:  :                        
NP_001 GNIFQKRR                       
      120                             




139 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 11:18:52 2016 done: Fri Nov  4 11:18:53 2016
 Total Scan time:  4.550 Total Display time: -0.040

Function used was FASTA [36.3.4 Apr, 2011]