# /usr/local/bin/fasta34_t -T 4 -b50 -d10 -E0.01 -H -O./tmp/mpk03943.fasta.nr -Q ../query/mKIAA0293.ptfa /cdna4/rodent/rouge_util/new.rouge/nfasta/nr 2 FASTA searches a protein or DNA sequence data bank version 34.26.5 April 26, 2007 Please cite: W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448 mKIAA0293, 84 aa vs /cdna4/rodent/rouge_util/new.rouge/nfasta/nr library 2727779818 residues in 7921681 sequences statistics sampled from 60000 to 7920028 sequences Expectation_n fit: rho(ln(x))= 5.9738+/-0.000191; mu= 0.6703+/- 0.011 mean_var=96.5534+/-18.603, 0's: 49 Z-trim: 51 B-trim: 366 in 2/64 Lambda= 0.130524 FASTA (3.5 Sept 2006) function [optimized, BL50 matrix (15:-5)] ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 The best scores are: opt bits E(7921681) gi|74183825|dbj|BAE24497.1| unnamed protein produc ( 376) 559 114.2 1e-23 gi|13626177|sp|P70298.1|CUX2_MOUSE RecName: Full=H (1426) 559 114.7 2.9e-23 gi|40675455|gb|AAH65113.1| Cut-like homeobox 2 [Mu (1426) 559 114.7 2.9e-23 gi|149063389|gb|EDM13712.1| cut-like 2 (Drosophila ( 487) 515 106.0 3.9e-21 gi|146332225|gb|ABQ22618.1| homeobox protein cut-l ( 126) 472 97.5 3.7e-19 gi|119618354|gb|EAW97948.1| hCG1812168 [Homo sapie ( 783) 472 98.1 1.5e-18 gi|67476941|sp|O14529.3|CUX2_HUMAN RecName: Full=H (1424) 472 98.3 2.5e-18 gi|153217467|gb|AAI51246.1| Cut-like homeobox 2 [H (1486) 472 98.3 2.5e-18 gi|194042951|ref|XP_001927249.1| PREDICTED: simila (1671) 471 98.1 3.2e-18 gi|73995204|ref|XP_543393.2| PREDICTED: similar to (1527) 469 97.7 3.8e-18 gi|147898013|gb|AAI40441.1| Cut-like homeobox 2 [s (1486) 468 97.5 4.3e-18 gi|119909290|ref|XP_602816.3| PREDICTED: similar t (1502) 455 95.1 2.3e-17 gi|149408859|ref|XP_001506212.1| PREDICTED: simila (1543) 376 80.2 7.2e-13 gi|197245578|gb|AAI68490.1| Cux2 protein [Xenopus (1436) 319 69.5 1.2e-09 gi|169158183|emb|CAQ15632.1| novel protein similar (1237) 245 55.5 1.6e-05 gi|189522248|ref|XP_693902.3| PREDICTED: similar t (1452) 245 55.5 1.8e-05 >>gi|74183825|dbj|BAE24497.1| unnamed protein product [M (376 aa) initn: 559 init1: 559 opt: 559 Z-score: 582.2 bits: 114.2 E(): 1e-23 Smith-Waterman score: 559; 100.000% identity (100.000% similar) in 84 aa overlap (1-84:293-376) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :::::::::::::::::::::::::::::: gi|741 VHSEPLSFKSTSESSCCSLEGPPNSPSVISSPDLTTCVSPAPSSSAPISPSLPGAPPAKV 270 280 290 300 310 320 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF :::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|741 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF 330 340 350 360 370 >>gi|13626177|sp|P70298.1|CUX2_MOUSE RecName: Full=Homeo (1426 aa) initn: 559 init1: 559 opt: 559 Z-score: 574.1 bits: 114.7 E(): 2.9e-23 Smith-Waterman score: 559; 100.000% identity (100.000% similar) in 84 aa overlap (1-84:1343-1426) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :::::::::::::::::::::::::::::: gi|136 VHSEPLSFKSTSESSCCSLEGPPNSPSVISSPDLTTCVSPAPSSSAPISPSLPGAPPAKV 1320 1330 1340 1350 1360 1370 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF :::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|136 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF 1380 1390 1400 1410 1420 >>gi|40675455|gb|AAH65113.1| Cut-like homeobox 2 [Mus mu (1426 aa) initn: 559 init1: 559 opt: 559 Z-score: 574.1 bits: 114.7 E(): 2.9e-23 Smith-Waterman score: 559; 100.000% identity (100.000% similar) in 84 aa overlap (1-84:1343-1426) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :::::::::::::::::::::::::::::: gi|406 VHSEPLSFKSTSESSCCSLEGPPNSPSVISSPDLTTCVSPAPSSSAPISPSLPGAPPAKV 1320 1330 1340 1350 1360 1370 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF :::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|406 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF 1380 1390 1400 1410 1420 >>gi|149063389|gb|EDM13712.1| cut-like 2 (Drosophila) (p (487 aa) initn: 515 init1: 515 opt: 515 Z-score: 535.8 bits: 106.0 E(): 3.9e-21 Smith-Waterman score: 515; 92.857% identity (96.429% similar) in 84 aa overlap (1-84:404-487) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :::: :::::::::::::::::::. :::: gi|149 VHSEPLSFKSTSESSCCSLEGPPNSPSAISSPDLMTCVSPAPSSSAPISPSLPGTLPAKV 380 390 400 410 420 430 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::::::.: :::::::::::::::::::::::::::::::::::::::.::::: gi|149 PSTSPTADPAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEALEWEF 440 450 460 470 480 >>gi|146332225|gb|ABQ22618.1| homeobox protein cut-like (126 aa) initn: 472 init1: 472 opt: 472 Z-score: 500.3 bits: 97.5 E(): 3.7e-19 Smith-Waterman score: 472; 84.524% identity (92.857% similar) in 84 aa overlap (1-84:43-126) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :: : :::.:::::::::: :::::::: gi|146 LHPDPLSFKSASESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKV 20 30 40 50 60 70 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::.:::.: :.::::..:::::::::::::::::::::::::::::::.::::: gi|146 PSASPTADMAGALHPNAKVNPNLQRRHEKMANLNSIIYRLERAANREEALEWEF 80 90 100 110 120 >>gi|119618354|gb|EAW97948.1| hCG1812168 [Homo sapiens] (783 aa) initn: 472 init1: 472 opt: 472 Z-score: 489.2 bits: 98.1 E(): 1.5e-18 Smith-Waterman score: 472; 84.524% identity (92.857% similar) in 84 aa overlap (1-84:700-783) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :: : :::.:::::::::: :::::::: gi|119 LHPDPLSFKSASESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKV 670 680 690 700 710 720 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::.:::.: :.:::::.:::::::::::::::::.:::::::::::::.::::: gi|119 PSASPTADMAGALHPSAKVNPNLQRRHEKMANLNNIIYRLERAANREEALEWEF 730 740 750 760 770 780 >>gi|67476941|sp|O14529.3|CUX2_HUMAN RecName: Full=Homeo (1424 aa) initn: 472 init1: 472 opt: 472 Z-score: 485.5 bits: 98.3 E(): 2.5e-18 Smith-Waterman score: 472; 84.524% identity (92.857% similar) in 84 aa overlap (1-84:1341-1424) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :: : :::.:::::::::: :::::::: gi|674 LHPDPLSFKSASESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKV 1320 1330 1340 1350 1360 1370 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::.:::.: :.:::::.:::::::::::::::::.:::::::::::::.::::: gi|674 PSASPTADMAGALHPSAKVNPNLQRRHEKMANLNNIIYRLERAANREEALEWEF 1380 1390 1400 1410 1420 >>gi|153217467|gb|AAI51246.1| Cut-like homeobox 2 [Homo (1486 aa) initn: 472 init1: 472 opt: 472 Z-score: 485.3 bits: 98.3 E(): 2.5e-18 Smith-Waterman score: 472; 84.524% identity (92.857% similar) in 84 aa overlap (1-84:1403-1486) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :: : :::.:::::::::: :::::::: gi|153 LHPDPLSFKSASESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKV 1380 1390 1400 1410 1420 1430 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::.:::.: :.:::::.:::::::::::::::::.:::::::::::::.::::: gi|153 PSASPTADMAGALHPSAKVNPNLQRRHEKMANLNNIIYRLERAANREEALEWEF 1440 1450 1460 1470 1480 >>gi|194042951|ref|XP_001927249.1| PREDICTED: similar to (1671 aa) initn: 471 init1: 471 opt: 471 Z-score: 483.5 bits: 98.1 E(): 3.2e-18 Smith-Waterman score: 471; 85.714% identity (92.857% similar) in 84 aa overlap (1-84:1588-1671) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :: : :::.:::::::::: ::. :::: gi|194 LHPDPLSFKSASESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGTTPAKV 1560 1570 1580 1590 1600 1610 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::.:::.:::.:::::::::::::::::::::::::::::::::::::.::::: gi|194 PSASPTADTAGALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEALEWEF 1620 1630 1640 1650 1660 1670 >>gi|73995204|ref|XP_543393.2| PREDICTED: similar to cut (1527 aa) initn: 469 init1: 469 opt: 469 Z-score: 482.0 bits: 97.7 E(): 3.8e-18 Smith-Waterman score: 469; 85.714% identity (91.667% similar) in 84 aa overlap (1-84:1444-1527) 10 20 30 mKIAA0 SPDLTTCVSPAPSSSAPISPSLPGAPPAKV :: : :::.:::::::::: :::::::: gi|739 LHPDPLSFKSVSESSRCSLEVSLNSPSAASSPGLMMSVSPVPSSSAPISPSPPGAPPAKV 1420 1430 1440 1450 1460 1470 40 50 60 70 80 mKIAA0 PSTSPTGDTAAALHPSTKVNPNLQRRHEKMANLNSIIYRLERAANREEVLEWEF ::.::: :::.:::::.::: :::::::::::::::::::::::::::.::::: gi|739 PSASPTTDTAGALHPSAKVNSNLQRRHEKMANLNSIIYRLERAANREEALEWEF 1480 1490 1500 1510 1520 84 residues in 1 query sequences 2727779818 residues in 7921681 library sequences Tcomplib [34.26] (2 proc) start: Fri Mar 13 21:26:03 2009 done: Fri Mar 13 21:29:36 2009 Total Scan time: 486.560 Total Display time: 0.030 Function used was FASTA [version 34.26.5 April 26, 2007]