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: pF1KE6252, 221 aa
  1>>>pF1KE6252 221 - 221 aa - 221 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 8.1834+/-0.00028; mu= 2.0490+/- 0.018
 mean_var=183.7852+/-36.562, 0's: 0 Z-trim(124.4): 9  B-trim: 0 in 0/53
 Lambda= 0.094606
 statistics sampled from 45903 (45913) to 45903 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.839), E-opt: 0.2 (0.538), width:  16
 Scan time:  5.290

The best scores are:                                      opt bits E(85289)
NP_976033 (OMIM: 180104,607331) retinitis pigmento ( 221) 1527 219.4 3.7e-57
XP_011513770 (OMIM: 180104,607331) PREDICTED: reti ( 187) 1184 172.5   4e-43


>>NP_976033 (OMIM: 180104,607331) retinitis pigmentosa 9  (221 aa)
 initn: 1527 init1: 1527 opt: 1527  Z-score: 1147.1  bits: 219.4 E(85289): 3.7e-57
Smith-Waterman score: 1527; 100.0% identity (100.0% similar) in 221 aa overlap (1-221:1-221)

               10        20        30        40        50        60
pF1KE6 MSSRPGREDVGAAGARRPREPPEQELQRRREQKRRRHDAQQLQQLKHLESFYEKPPPGLI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_976 MSSRPGREDVGAAGARRPREPPEQELQRRREQKRRRHDAQQLQQLKHLESFYEKPPPGLI
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE6 KEDETKPEDCIPDVPGNEHAREFLAHAPTKGLWMPLGKEVKVMQCWRCKRYGHRTGDKEC
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_976 KEDETKPEDCIPDVPGNEHAREFLAHAPTKGLWMPLGKEVKVMQCWRCKRYGHRTGDKEC
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE6 PFFIKGNQKLEQFRVAHEDPMYDIIRDNKRHEKDVRIQQLKQLLEDSTSDEDRSSSSSSE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_976 PFFIKGNQKLEQFRVAHEDPMYDIIRDNKRHEKDVRIQQLKQLLEDSTSDEDRSSSSSSE
              130       140       150       160       170       180

              190       200       210       220 
pF1KE6 GKEKHKKKKKKEKHKKRKKEKKKKKKRKHKSSKSNEGSDSE
       :::::::::::::::::::::::::::::::::::::::::
NP_976 GKEKHKKKKKKEKHKKRKKEKKKKKKRKHKSSKSNEGSDSE
              190       200       210       220 

>>XP_011513770 (OMIM: 180104,607331) PREDICTED: retiniti  (187 aa)
 initn: 1178 init1: 1178 opt: 1184  Z-score: 895.1  bits: 172.5 E(85289): 4e-43
Smith-Waterman score: 1184; 94.6% identity (96.2% similar) in 184 aa overlap (39-221:4-187)

       10        20        30        40        50         60       
pF1KE6 DVGAAGARRPREPPEQELQRRREQKRRRHDAQQLQQLKHLESF-YEKPPPGLIKEDETKP
                                     : : .. ::   . ::::::::::::::::
XP_011                            MAGAAQHREEKHSALLSYEKPPPGLIKEDETKP
                                          10        20        30   

        70        80        90       100       110       120       
pF1KE6 EDCIPDVPGNEHAREFLAHAPTKGLWMPLGKEVKVMQCWRCKRYGHRTGDKECPFFIKGN
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 EDCIPDVPGNEHAREFLAHAPTKGLWMPLGKEVKVMQCWRCKRYGHRTGDKECPFFIKGN
            40        50        60        70        80        90   

       130       140       150       160       170       180       
pF1KE6 QKLEQFRVAHEDPMYDIIRDNKRHEKDVRIQQLKQLLEDSTSDEDRSSSSSSEGKEKHKK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 QKLEQFRVAHEDPMYDIIRDNKRHEKDVRIQQLKQLLEDSTSDEDRSSSSSSEGKEKHKK
           100       110       120       130       140       150   

       190       200       210       220 
pF1KE6 KKKKEKHKKRKKEKKKKKKRKHKSSKSNEGSDSE
       ::::::::::::::::::::::::::::::::::
XP_011 KKKKEKHKKRKKEKKKKKKRKHKSSKSNEGSDSE
           160       170       180       




221 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Tue Nov  8 11:28:58 2016 done: Tue Nov  8 11:28:59 2016
 Total Scan time:  5.290 Total Display time: -0.040

Function used was FASTA [36.3.4 Apr, 2011]