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: pF1KB6867, 180 aa
  1>>>pF1KB6867 180 - 180 aa - 180 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 12.6627+/-0.000409; mu= -17.7009+/- 0.026
 mean_var=606.8045+/-127.849, 0's: 0 Z-trim(126.7): 6  B-trim: 961 in 1/61
 Lambda= 0.052065
 statistics sampled from 53266 (53282) to 53266 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.865), E-opt: 0.2 (0.625), width:  16
 Scan time:  6.730

The best scores are:                                      opt bits E(85289)
NP_003084 (OMIM: 603522) U1 small nuclear ribonucl ( 159) 1206 103.4 1.8e-22


>>NP_003084 (OMIM: 603522) U1 small nuclear ribonucleopr  (159 aa)
 initn: 1206 init1: 1206 opt: 1206  Z-score: 524.4  bits: 103.4 E(85289): 1.8e-22
Smith-Waterman score: 1206; 99.4% identity (100.0% similar) in 157 aa overlap (24-180:3-159)

               10        20        30        40        50        60
pF1KB6 MNSASVDGHLSGCRLFLFLSPLFRFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQ
                              .::::::::::::::::::::::::::::::::::::
NP_003                      MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQ
                                    10        20        30         

               70        80        90       100       110       120
pF1KB6 KWMEEQAQSLIDKTTAAFQQGKIPPTPFSAPPPAGAMIPPPPSLPGPPRPGMMPAPHMGG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 KWMEEQAQSLIDKTTAAFQQGKIPPTPFSAPPPAGAMIPPPPSLPGPPRPGMMPAPHMGG
      40        50        60        70        80        90         

              130       140       150       160       170       180
pF1KB6 PPMMPMMGPPPPGMMPVGPAPGMRPPMGGHMPMMPGPPMMRPPARPMMVPTRPGMTRPDR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 PPMMPMMGPPPPGMMPVGPAPGMRPPMGGHMPMMPGPPMMRPPARPMMVPTRPGMTRPDR
     100       110       120       130       140       150         




180 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 14:41:50 2016 done: Fri Nov  4 14:41:51 2016
 Total Scan time:  6.730 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]