Result of FASTA (omim) for
pFN21AE1335
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: pF1KE1335, 232 aa
1>>>pF1KE1335 232 - 232 aa - 232 aa
Library: /omim/omim.rfq.tfa
60827320 residues in 85289 sequences
Statistics: Expectation_n fit: rho(ln(x))= 5.3565+/-0.000283; mu= 15.5345+/- 0.018
mean_var=86.1368+/-17.277, 0's: 0 Z-trim(120.6): 8 B-trim: 1168 in 1/52
Lambda= 0.138191
statistics sampled from 35945 (35953) to 35945 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
ktup: 2, E-join: 1 (0.782), E-opt: 0.2 (0.422), width: 16
Scan time: 6.540
The best scores are: opt bits E(85289)
NP_004346 (OMIM: 142790) HLA class II histocompati ( 232) 1587 325.3 5.5e-89
XP_016865579 (OMIM: 142790) PREDICTED: HLA class I ( 257) 1565 320.9 1.2e-87
NP_001020330 (OMIM: 142790) HLA class II histocomp ( 296) 1429 293.9 2e-79
XP_016865578 (OMIM: 142790) PREDICTED: HLA class I ( 321) 1429 293.9 2.1e-79
NP_001020329 (OMIM: 142790) HLA class II histocomp ( 160) 987 205.5 4.3e-53
>>NP_004346 (OMIM: 142790) HLA class II histocompatibili (232 aa)
initn: 1587 init1: 1587 opt: 1587 Z-score: 1718.5 bits: 325.3 E(85289): 5.5e-89
Smith-Waterman score: 1587; 100.0% identity (100.0% similar) in 232 aa overlap (1-232:1-232)
10 20 30 40 50 60
pF1KE1 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KE1 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
70 80 90 100 110 120
130 140 150 160 170 180
pF1KE1 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
130 140 150 160 170 180
190 200 210 220 230
pF1KE1 FESWMHHWLLFEMSRHSLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPVPM
::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 FESWMHHWLLFEMSRHSLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPVPM
190 200 210 220 230
>>XP_016865579 (OMIM: 142790) PREDICTED: HLA class II hi (257 aa)
initn: 1565 init1: 1565 opt: 1565 Z-score: 1694.2 bits: 320.9 E(85289): 1.2e-87
Smith-Waterman score: 1565; 100.0% identity (100.0% similar) in 229 aa overlap (1-229:1-229)
10 20 30 40 50 60
pF1KE1 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KE1 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
70 80 90 100 110 120
130 140 150 160 170 180
pF1KE1 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
130 140 150 160 170 180
190 200 210 220 230
pF1KE1 FESWMHHWLLFEMSRHSLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPVPM
:::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 FESWMHHWLLFEMSRHSLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPGKGLAEGHLVT
190 200 210 220 230 240
XP_016 SSSSPAGPAPLWAGEGV
250
>>NP_001020330 (OMIM: 142790) HLA class II histocompatib (296 aa)
initn: 1573 init1: 1429 opt: 1429 Z-score: 1546.9 bits: 293.9 E(85289): 2e-79
Smith-Waterman score: 1429; 100.0% identity (100.0% similar) in 208 aa overlap (1-208:1-208)
10 20 30 40 50 60
pF1KE1 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KE1 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
70 80 90 100 110 120
130 140 150 160 170 180
pF1KE1 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
130 140 150 160 170 180
190 200 210 220 230
pF1KE1 FESWMHHWLLFEMSRHSLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPVPM
::::::::::::::::::::::::::::
NP_001 FESWMHHWLLFEMSRHSLEQKPTDAPPKVLTKCQEEVSHIPAVHPGSFRPKCDENGNYLP
190 200 210 220 230 240
>>XP_016865578 (OMIM: 142790) PREDICTED: HLA class II hi (321 aa)
initn: 1551 init1: 1429 opt: 1429 Z-score: 1546.4 bits: 293.9 E(85289): 2.1e-79
Smith-Waterman score: 1429; 100.0% identity (100.0% similar) in 208 aa overlap (1-208:1-208)
10 20 30 40 50 60
pF1KE1 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KE1 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
70 80 90 100 110 120
130 140 150 160 170 180
pF1KE1 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
130 140 150 160 170 180
190 200 210 220 230
pF1KE1 FESWMHHWLLFEMSRHSLEQKPTDAPPKESLELEDPSSGLGVTKQDLGPVPM
::::::::::::::::::::::::::::
XP_016 FESWMHHWLLFEMSRHSLEQKPTDAPPKVLTKCQEEVSHIPAVHPGSFRPKCDENGNYLP
190 200 210 220 230 240
>>NP_001020329 (OMIM: 142790) HLA class II histocompatib (160 aa)
initn: 1001 init1: 987 opt: 987 Z-score: 1074.2 bits: 205.5 E(85289): 4.3e-53
Smith-Waterman score: 987; 99.3% identity (100.0% similar) in 148 aa overlap (1-148:1-148)
10 20 30 40 50 60
pF1KE1 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MHRRRSRSCREDQKPVMDDQRDLISNNEQLPMLGRRPGAPESKCSRGALYTGFSILVTLL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KE1 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 LAGQATTAYFLYQQQGRLDKLTVTSQNLQLENLRMKLPKPPKPVSKMRMATPLLMQALPM
70 80 90 100 110 120
130 140 150 160 170 180
pF1KE1 GALPQGPMQNATKYGNMTEDHVMHLLQNADPLKVYPPLKGSFPENLRHLKNTMETIDWKV
:::::::::::::::::::::::::::.
NP_001 GALPQGPMQNATKYGNMTEDHVMHLLQSHWNWRTRLLGWV
130 140 150 160
232 residues in 1 query sequences
60827320 residues in 85289 library sequences
Tcomplib [36.3.4 Apr, 2011] (8 proc)
start: Mon Nov 7 00:54:54 2016 done: Mon Nov 7 00:54:55 2016
Total Scan time: 6.540 Total Display time: -0.030
Function used was FASTA [36.3.4 Apr, 2011]