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: pF1KB6775, 118 aa
  1>>>pF1KB6775 118 - 118 aa - 118 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.1093+/-0.000279; mu= 11.7037+/- 0.018
 mean_var=60.4429+/-11.714, 0's: 0 Z-trim(118.0): 12  B-trim: 0 in 0/53
 Lambda= 0.164969
 statistics sampled from 30525 (30536) to 30525 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.747), E-opt: 0.2 (0.358), width:  16
 Scan time:  4.050

The best scores are:                                      opt bits E(85289)
NP_004588 (OMIM: 601061) small nuclear ribonucleop ( 118)  769 190.5 5.3e-49
NP_808210 (OMIM: 601061) small nuclear ribonucleop ( 108)  707 175.7 1.4e-44
NP_055278 (OMIM: 607283) U6 snRNA-associated Sm-li ( 102)  154 44.1 5.4e-05


>>NP_004588 (OMIM: 601061) small nuclear ribonucleoprote  (118 aa)
 initn: 769 init1: 769 opt: 769  Z-score: 1000.7  bits: 190.5 E(85289): 5.3e-49
Smith-Waterman score: 769; 100.0% identity (100.0% similar) in 118 aa overlap (1-118:1-118)

               10        20        30        40        50        60
pF1KB6 MSLLNKPKSEMTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MSLLNKPKSEMTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD
               10        20        30        40        50        60

               70        80        90       100       110        
pF1KB6 RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLIAGK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLIAGK
               70        80        90       100       110        

>>NP_808210 (OMIM: 601061) small nuclear ribonucleoprote  (108 aa)
 initn: 707 init1: 707 opt: 707  Z-score: 921.6  bits: 175.7 E(85289): 1.4e-44
Smith-Waterman score: 707; 100.0% identity (100.0% similar) in 108 aa overlap (11-118:1-108)

               10        20        30        40        50        60
pF1KB6 MSLLNKPKSEMTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD
                 ::::::::::::::::::::::::::::::::::::::::::::::::::
NP_808           MTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD
                         10        20        30        40        50

               70        80        90       100       110        
pF1KB6 RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLIAGK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_808 RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLIAGK
               60        70        80        90       100        

>>NP_055278 (OMIM: 607283) U6 snRNA-associated Sm-like p  (102 aa)
 initn: 133 init1: 109 opt: 154  Z-score: 210.6  bits: 44.1 E(85289): 5.4e-05
Smith-Waterman score: 154; 32.2% identity (66.7% similar) in 90 aa overlap (28-117:17-102)

               10        20        30        40        50        60
pF1KB6 MSLLNKPKSEMTPEELQKREEEEFNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFD
                                  ::...  :.  . .. .. ::...: ::..:.:
NP_055            MADDVDQQQTTNTVEEPLDLIRLSL--DERIYVKMRNDRELRGRLHAYD
                          10        20          30        40       

               70        80        90       100       110        
pF1KB6 RHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNPLIAGK
       .: ::.: .:.:  : .  . .  ..    .: : :  .:.:::.:..:   :: .: 
NP_055 QHLNMILGDVEETVTTIEIDEETYEEIYKSTK-RNIPMLFVRGDGVVLVA-PPLRVG 
        50        60        70         80        90        100   




118 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 23:57:44 2016 done: Fri Nov  4 23:57:44 2016
 Total Scan time:  4.050 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]