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: pF1KSDA0252, 670 aa
  1>>>pF1KSDA0252 670 - 670 aa - 670 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 13.4492+/-0.000509; mu= -18.1711+/- 0.032
 mean_var=482.7331+/-97.982, 0's: 0 Z-trim(121.2): 6  B-trim: 0 in 0/54
 Lambda= 0.058374
 statistics sampled from 37369 (37375) to 37369 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.729), E-opt: 0.2 (0.438), width:  16
 Scan time: 11.900

The best scores are:                                      opt bits E(85289)
NP_055953 (OMIM: 611633) RNA polymerase-associated ( 710) 4289 376.2 2.3e-103


>>NP_055953 (OMIM: 611633) RNA polymerase-associated pro  (710 aa)
 initn: 4289 init1: 4289 opt: 4289  Z-score: 1976.6  bits: 376.2 E(85289): 2.3e-103
Smith-Waterman score: 4289; 100.0% identity (100.0% similar) in 670 aa overlap (1-670:41-710)

                                             10        20        30
pF1KSD                               MVKKRKGRVVIDSDTEDSGSDENLDQELLS
                                     ::::::::::::::::::::::::::::::
NP_055 AAAAAAVAVPLAGGQEGSPGGGRRGSRGTTMVKKRKGRVVIDSDTEDSGSDENLDQELLS
               20        30        40        50        60        70

               40        50        60        70        80        90
pF1KSD LAKRKRSDSEEKEPPVSQPAASSDSETSDSDDEWTFGSNKNKKKGKARKIEKKGTMKKQA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 LAKRKRSDSEEKEPPVSQPAASSDSETSDSDDEWTFGSNKNKKKGKARKIEKKGTMKKQA
               80        90       100       110       120       130

              100       110       120       130       140       150
pF1KSD NKTASSGSSDKDSSAESSAPEEGEVSDSDSNSSSSSSDSDSSSEDEEFHDGYGEDLMGDE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 NKTASSGSSDKDSSAESSAPEEGEVSDSDSNSSSSSSDSDSSSEDEEFHDGYGEDLMGDE
              140       150       160       170       180       190

              160       170       180       190       200       210
pF1KSD EDRARLEQMTEKEREQELFNRIEKREVLKRRFEIKKKLKTAKKKEKKEKKKKQEEEQEKK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 EDRARLEQMTEKEREQELFNRIEKREVLKRRFEIKKKLKTAKKKEKKEKKKKQEEEQEKK
              200       210       220       230       240       250

              220       230       240       250       260       270
pF1KSD KLTQIQESQVTSHNKERRSKRDEKLDKKSQAMEELKAEREKRKNRTAELLAKKQPLKTSE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 KLTQIQESQVTSHNKERRSKRDEKLDKKSQAMEELKAEREKRKNRTAELLAKKQPLKTSE
              260       270       280       290       300       310

              280       290       300       310       320       330
pF1KSD VYSDDEEEEEDDKSSEKSDRSSRTSSSDEEEEKEEIPPKSQPVSLPEELNRVRLSRHKLE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 VYSDDEEEEEDDKSSEKSDRSSRTSSSDEEEEKEEIPPKSQPVSLPEELNRVRLSRHKLE
              320       330       340       350       360       370

              340       350       360       370       380       390
pF1KSD RWCHMPFFAKTVTGCFVRIGIGNHNSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 RWCHMPFFAKTVTGCFVRIGIGNHNSKPVYRVAEITGVVETAKVYQLGGTRTNKGLQLRH
              380       390       400       410       420       430

              400       410       420       430       440       450
pF1KSD GNDQRVFRLEFVSNQEFTESEFMKWKEAMFSAGMQLPTLDEINKKELSIKEALNYKFNDQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 GNDQRVFRLEFVSNQEFTESEFMKWKEAMFSAGMQLPTLDEINKKELSIKEALNYKFNDQ
              440       450       460       470       480       490

              460       470       480       490       500       510
pF1KSD DIEEIVKEKERFRKAPPNYAMKKTQLLKEKAMAEDLGDQDKAKQIQDQLNELEERAEALD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 DIEEIVKEKERFRKAPPNYAMKKTQLLKEKAMAEDLGDQDKAKQIQDQLNELEERAEALD
              500       510       520       530       540       550

              520       530       540       550       560       570
pF1KSD RQRTKNISAISYINQRNREWNIVESEKALVAESHNMKNQQMDPFTRRQCKPTIVSNSRDP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 RQRTKNISAISYINQRNREWNIVESEKALVAESHNMKNQQMDPFTRRQCKPTIVSNSRDP
              560       570       580       590       600       610

              580       590       600       610       620       630
pF1KSD AVQAAILAQLNAKYGSGVLPDAPKEMSKGQGKDKDLNSKSASDLSEDLFKVHDFDVKIDL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_055 AVQAAILAQLNAKYGSGVLPDAPKEMSKGQGKDKDLNSKSASDLSEDLFKVHDFDVKIDL
              620       630       640       650       660       670

              640       650       660       670
pF1KSD QVPSSESKALAITSKAPPAKDGAPRRSLNLEDYKKRRGLI
       ::::::::::::::::::::::::::::::::::::::::
NP_055 QVPSSESKALAITSKAPPAKDGAPRRSLNLEDYKKRRGLI
              680       690       700       710




670 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Thu Nov  3 00:56:36 2016 done: Thu Nov  3 00:56:38 2016
 Total Scan time: 11.900 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]