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: pF1KB7521, 144 aa
  1>>>pF1KB7521 144 - 144 aa - 144 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.7327+/-0.000302; mu= 8.8547+/- 0.019
 mean_var=63.2374+/-12.057, 0's: 0 Z-trim(116.4): 16  B-trim: 0 in 0/55
 Lambda= 0.161282
 statistics sampled from 27559 (27566) to 27559 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.721), E-opt: 0.2 (0.323), width:  16
 Scan time:  5.200

The best scores are:                                      opt bits E(85289)
NP_004255 (OMIM: 603800) mediator of RNA polymeras ( 144)  914 220.8 6.1e-58
NP_001258740 (OMIM: 603800) mediator of RNA polyme (  68)  352 89.9 7.1e-19


>>NP_004255 (OMIM: 603800) mediator of RNA polymerase II  (144 aa)
 initn: 914 init1: 914 opt: 914  Z-score: 1161.2  bits: 220.8 E(85289): 6.1e-58
Smith-Waterman score: 914; 100.0% identity (100.0% similar) in 144 aa overlap (1-144:1-144)

               10        20        30        40        50        60
pF1KB7 MADRLTQLQDAVNSLADQFCNAIGVLQQCGPPASFNNIQTAINKDQPANPTEEYAQLFAA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MADRLTQLQDAVNSLADQFCNAIGVLQQCGPPASFNNIQTAINKDQPANPTEEYAQLFAA
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 LIARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 LIARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQS
               70        80        90       100       110       120

              130       140    
pF1KB7 ALADIAQSQLKTRSGTHSQSLPDS
       ::::::::::::::::::::::::
NP_004 ALADIAQSQLKTRSGTHSQSLPDS
              130       140    

>>NP_001258740 (OMIM: 603800) mediator of RNA polymerase  (68 aa)
 initn: 352 init1: 352 opt: 352  Z-score: 459.9  bits: 89.9 E(85289): 7.1e-19
Smith-Waterman score: 352; 100.0% identity (100.0% similar) in 52 aa overlap (1-52:1-52)

               10        20        30        40        50        60
pF1KB7 MADRLTQLQDAVNSLADQFCNAIGVLQQCGPPASFNNIQTAINKDQPANPTEEYAQLFAA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::        
NP_001 MADRLTQLQDAVNSLADQFCNAIGVLQQCGPPASFNNIQTAINKDQPANPTEVCPAFCST
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 LIARTAKDIDVLIDSLPSEESTAALQAASLYKLEEENHEAATCLEDVVYRGDMLLEKIQS
                                                                   
NP_001 DCTNSKRH                                                    
                                                                   




144 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 08:24:20 2016 done: Fri Nov  4 08:24:21 2016
 Total Scan time:  5.200 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]