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: pF1KB8890, 208 aa
  1>>>pF1KB8890 208 - 208 aa - 208 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.3758+/-0.000368; mu= 12.0389+/- 0.023
 mean_var=56.1844+/-11.220, 0's: 0 Z-trim(112.3): 8  B-trim: 0 in 0/50
 Lambda= 0.171107
 statistics sampled from 21199 (21203) to 21199 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.639), E-opt: 0.2 (0.249), width:  16
 Scan time:  5.840

The best scores are:                                      opt bits E(85289)
NP_060108 (OMIM: 612384) mediator of RNA polymeras ( 208) 1388 350.8 9.1e-97
NP_001120822 (OMIM: 612384) mediator of RNA polyme ( 208) 1388 350.8 9.1e-97
XP_005245971 (OMIM: 612384) PREDICTED: mediator of ( 208) 1388 350.8 9.1e-97


>>NP_060108 (OMIM: 612384) mediator of RNA polymerase II  (208 aa)
 initn: 1388 init1: 1388 opt: 1388  Z-score: 1858.3  bits: 350.8 E(85289): 9.1e-97
Smith-Waterman score: 1388; 100.0% identity (100.0% similar) in 208 aa overlap (1-208:1-208)

               10        20        30        40        50        60
pF1KB8 MEAPPVTMMPVTGGTINMMEYLLQGSVLDHSLESLIHRLRGLCDNMEPETFLDHEMVFLL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 MEAPPVTMMPVTGGTINMMEYLLQGSVLDHSLESLIHRLRGLCDNMEPETFLDHEMVFLL
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 KGQQASPFVLRARRSMDRAGAPWHLRYLGQPEMGDKNRHALVRNCVDIATSENLTDFLME
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 KGQQASPFVLRARRSMDRAGAPWHLRYLGQPEMGDKNRHALVRNCVDIATSENLTDFLME
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB8 MGFRMDHEFVAKGHLFRKGIMKIMVYKIFRILVPGNTDSTEALSLSYLVELSVVAPAGQD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_060 MGFRMDHEFVAKGHLFRKGIMKIMVYKIFRILVPGNTDSTEALSLSYLVELSVVAPAGQD
              130       140       150       160       170       180

              190       200        
pF1KB8 MVSDDMKNFAEQLKPLVHLEKIDPKRLM
       ::::::::::::::::::::::::::::
NP_060 MVSDDMKNFAEQLKPLVHLEKIDPKRLM
              190       200        

>>NP_001120822 (OMIM: 612384) mediator of RNA polymerase  (208 aa)
 initn: 1388 init1: 1388 opt: 1388  Z-score: 1858.3  bits: 350.8 E(85289): 9.1e-97
Smith-Waterman score: 1388; 100.0% identity (100.0% similar) in 208 aa overlap (1-208:1-208)

               10        20        30        40        50        60
pF1KB8 MEAPPVTMMPVTGGTINMMEYLLQGSVLDHSLESLIHRLRGLCDNMEPETFLDHEMVFLL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MEAPPVTMMPVTGGTINMMEYLLQGSVLDHSLESLIHRLRGLCDNMEPETFLDHEMVFLL
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 KGQQASPFVLRARRSMDRAGAPWHLRYLGQPEMGDKNRHALVRNCVDIATSENLTDFLME
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 KGQQASPFVLRARRSMDRAGAPWHLRYLGQPEMGDKNRHALVRNCVDIATSENLTDFLME
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB8 MGFRMDHEFVAKGHLFRKGIMKIMVYKIFRILVPGNTDSTEALSLSYLVELSVVAPAGQD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MGFRMDHEFVAKGHLFRKGIMKIMVYKIFRILVPGNTDSTEALSLSYLVELSVVAPAGQD
              130       140       150       160       170       180

              190       200        
pF1KB8 MVSDDMKNFAEQLKPLVHLEKIDPKRLM
       ::::::::::::::::::::::::::::
NP_001 MVSDDMKNFAEQLKPLVHLEKIDPKRLM
              190       200        

>>XP_005245971 (OMIM: 612384) PREDICTED: mediator of RNA  (208 aa)
 initn: 1388 init1: 1388 opt: 1388  Z-score: 1858.3  bits: 350.8 E(85289): 9.1e-97
Smith-Waterman score: 1388; 100.0% identity (100.0% similar) in 208 aa overlap (1-208:1-208)

               10        20        30        40        50        60
pF1KB8 MEAPPVTMMPVTGGTINMMEYLLQGSVLDHSLESLIHRLRGLCDNMEPETFLDHEMVFLL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 MEAPPVTMMPVTGGTINMMEYLLQGSVLDHSLESLIHRLRGLCDNMEPETFLDHEMVFLL
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 KGQQASPFVLRARRSMDRAGAPWHLRYLGQPEMGDKNRHALVRNCVDIATSENLTDFLME
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 KGQQASPFVLRARRSMDRAGAPWHLRYLGQPEMGDKNRHALVRNCVDIATSENLTDFLME
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB8 MGFRMDHEFVAKGHLFRKGIMKIMVYKIFRILVPGNTDSTEALSLSYLVELSVVAPAGQD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 MGFRMDHEFVAKGHLFRKGIMKIMVYKIFRILVPGNTDSTEALSLSYLVELSVVAPAGQD
              130       140       150       160       170       180

              190       200        
pF1KB8 MVSDDMKNFAEQLKPLVHLEKIDPKRLM
       ::::::::::::::::::::::::::::
XP_005 MVSDDMKNFAEQLKPLVHLEKIDPKRLM
              190       200        




208 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 16:21:58 2016 done: Fri Nov  4 16:21:59 2016
 Total Scan time:  5.840 Total Display time: -0.020

Function used was FASTA [36.3.4 Apr, 2011]