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: pF1KE1724, 234 aa
  1>>>pF1KE1724 234 - 234 aa - 234 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 4.8686+/-0.000359; mu= 16.2425+/- 0.022
 mean_var=53.8284+/-10.658, 0's: 0 Z-trim(113.9): 13  B-trim: 433 in 1/54
 Lambda= 0.174811
 statistics sampled from 23454 (23461) to 23454 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.662), E-opt: 0.2 (0.275), width:  16
 Scan time:  5.200

The best scores are:                                      opt bits E(85289)
NP_001235 (OMIM: 603875) tumor necrosis factor lig ( 234) 1547 397.8 8.4e-111
NP_001239219 (OMIM: 603875) tumor necrosis factor  ( 164)  915 238.3 5.9e-63


>>NP_001235 (OMIM: 603875) tumor necrosis factor ligand   (234 aa)
 initn: 1547 init1: 1547 opt: 1547  Z-score: 2110.3  bits: 397.8 E(85289): 8.4e-111
Smith-Waterman score: 1547; 100.0% identity (100.0% similar) in 234 aa overlap (1-234:1-234)

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

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

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

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

>>NP_001239219 (OMIM: 603875) tumor necrosis factor liga  (164 aa)
 initn: 915 init1: 915 opt: 915  Z-score: 1251.2  bits: 238.3 E(85289): 5.9e-63
Smith-Waterman score: 915; 100.0% identity (100.0% similar) in 136 aa overlap (1-136:1-136)

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

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

              130       140       150       160       170       180
pF1KE1 LHGVRYQDGNLVIQFPGLYFIICQLQFLVQCPNNSVDLKLELLINKHIKKQALVTVCESG
       ::::::::::::::::                                            
NP_001 LHGVRYQDGNLVIQFPDYCGMILHHSHSTLDSGKGHCCLETLQP                
              130       140       150       160                    




234 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sun Nov  6 15:42:47 2016 done: Sun Nov  6 15:42:47 2016
 Total Scan time:  5.200 Total Display time: -0.040

Function used was FASTA [36.3.4 Apr, 2011]