FASTA searches a protein or DNA sequence data bank
version 3.4t11 Apr 17, 2002
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448
corf1.seq, 26 nt
vs EMBL new library
1041004857 residues in 248488 sequences
FASTA (3.45 Mar 2002) function [optimized, +5/-4 matrix (5:-4)] ktup: 3
join: 60, opt: 45, gap-pen: -16/-4, width: 16
The best scores are: opt
AY282752 SARS coronavirus CUHK-Su10, (29736) [f] 130
AY274119 SARS coronavirus TOR2, compl (29736) [f] 130
AY286402 SARS coronavirus Taiwan JC-2 ( 368) [f] 130
AY269391 SARS coronavirus Vietnam str ( 405) [f] 130
AY278554 SARS coronavirus CUHK-W1, co (29206) [f] 130
AY283794 SARS coronavirus isolate SIN (29711) [f] 130
AY283796 SARS coronavirus isolate SIN (29711) [f] 130
AY283798 SARS coronavirus isolate SIN (29711) [f] 130
AY283797 SARS coronavirus isolate SIN (29706) [f] 130
AY278489 SARS coronavirus GZ01, parti (29429) [f] 130
AY283795 SARS coronavirus isolate SIN (29705) [f] 130
AY278487 SARS coronavirus BJ02, parti (29430) [f] 130
AY278554 SARS coronavirus CUHK-W1, co (29206) [f] 130
AY297028 SARS coronavirus ZJ01, compl (29715) [f] 130
AY278554 SARS coronavirus CUHK-W1, co (29736) [f] 130
AY278554 SARS coronavirus CUHK-W1, co (29736) [f] 130
AY278490 SARS coronavirus BJ03, parti (29291) [f] 130
AY278554 SARS coronavirus CUHK-W1, co (29736) [f] 130
AY274119 SARS coronavirus TOR2, compl (29751) [f] 130
AY278488 SARS coronavirus BJ01, parti (28920) [f] 130
AY268049 SARS coronavirus Taiwan RNA- ( 433) [f] 130
AY271716 SARS coronavirus Tor2 RNA po ( 158) [f] 130
AY278741 SARS coronavirus Urbani, com (29727) [f] 130
AY278491 SARS coronavirus HKU-39849, (29742) [f] 130
AY274119 SARS coronavirus TOR2, compl (29736) [f] 130
AY291451 SARS coronavirus TW1, comple (29729) [f] 130
AY278488 SARS coronavirus BJ01, compl (29725) [f] 130
AY274119 SARS coronavirus TOR2, compl (29751) [f] 130
AC011230 Homo sapiens BAC clone CTD-2 (91311) [r] 87
AC092104 Homo sapiens BAC clone RP11- (54502) [r] 87
AX706962 Sequence 660 from Patent WO0 (177531) [r] 87
AX707892 Sequence 660 from Patent WO0 (177531) [r] 87
AC140119 Homo sapiens 3 BAC RP11-747D (80892) [f] 86
AC144561 Homo sapiens clone RP11-628C (176054) [r] 86
AP005855 Homo sapiens genomic DNA, ch (152531) [r] 84
AE016806 Vibrio vulnificus CMCP6 chro (304490) [r] 84
AE016870 Pseudomonas syringae pv. tom (310174) [r] 84
HS75K24 Human DNA sequence from clon (80279) [r] 83
AF233439 Homo sapiens chromosome 8 cl (231283) [r] 83
AF233439 Homo sapiens chromosome 8 cl (150940) [r] 83
>>AY282752 SARS coronavirus CUHK-Su10, complete genome. (29736 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15302-15327)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2827 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2827 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY274119 SARS coronavirus TOR2, complete genome. (29736 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15302-15327)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2741 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2741 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY286402 SARS coronavirus Taiwan JC-2003 RNA-directed RNA
polymerase (pol) gene, (368 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:68-93)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2864 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
40 50 60 70 80 90
AY2864 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
100 110 120 130 140 150
>>AY269391 SARS coronavirus Vietnam strain 200300592
polymerase gene, partial cds. le commentaire est ajouté pour obtenir grande longueur (405 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:79-104)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2693 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
50 60 70 80 90 100
AY2693 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
110 120 130 140 150 160
>>AY278554 SARS coronavirus CUHK-W1, complete genome. (29206 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15292-15317)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2785 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15270 15280 15290 15300 15310 15320
AY2785 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15330 15340 15350 15360 15370 15380
>>AY283794 SARS coronavirus isolate SIN2500 complete genome. (29711 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15301-15326)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2837 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2837 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY283796 SARS coronavirus isolate SIN2679 complete genome. (29711 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15301-15326)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2837 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2837 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY283798 SARS coronavirus isolate SIN2774 complete genome. (29711 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15301-15326)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2837 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2837 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY283797 SARS coronavirus isolate SIN2748 complete genome. (29706 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15301-15326)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2837 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2837 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY278489 SARS coronavirus GZ01, partial genome. (29429 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15429-15454)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2784 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15400 15410 15420 15430 15440 15450
AY2784 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15460 15470 15480 15490 15500 15510
>>AY283795 SARS coronavirus isolate SIN2677 complete genome. (29705 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15301-15326)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2837 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2837 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY278487 SARS coronavirus BJ02, partial genome. (29430 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15029-15054)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2784 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15000 15010 15020 15030 15040 15050
AY2784 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15060 15070 15080 15090 15100 15110
>>AY278554 SARS coronavirus CUHK-W1, complete genome. (29206 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15292-15317)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2785 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15270 15280 15290 15300 15310 15320
AY2785 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15330 15340 15350 15360 15370 15380
>>AY297028 SARS coronavirus ZJ01, complete genome. (29715 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15308-15333)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2970 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2970 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY278554 SARS coronavirus CUHK-W1, complete genome. (29736 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15302-15327)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2785 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2785 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY278554 SARS coronavirus CUHK-W1, complete genome. (29736 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15302-15327)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2785 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2785 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY278490 SARS coronavirus BJ03, partial genome. (29291 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15370-15395)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2784 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15340 15350 15360 15370 15380 15390
AY2784 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15400 15410 15420 15430 15440 15450
>>AY278554 SARS coronavirus CUHK-W1, complete genome. (29736 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15302-15327)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2785 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2785 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY274119 SARS coronavirus TOR2, complete genome. (29751 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15317-15342)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2741 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15290 15300 15310 15320 15330 15340
AY2741 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15350 15360 15370 15380 15390 15400
>>AY278488 SARS coronavirus BJ01, partial genome. (28920 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15044-15069)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2784 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15020 15030 15040 15050 15060 15070
AY2784 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15080 15090 15100 15110 15120 15130
>>AY268049 SARS coronavirus Taiwan RNA-directed RNA
polymerase (pol) gene, partial (433 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:79-104)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2680 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
50 60 70 80 90 100
AY2680 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
110 120 130 140 150 160
>>AY271716 SARS coronavirus Tor2 RNA polymerase 1b mRNA,
partial cds. (158 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:79-104)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2717 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
50 60 70 80 90 100
AY2717 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTA
110 120 130 140 150
>>AY278741 SARS coronavirus Urbani, complete genome. (29727 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15317-15342)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2787 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15290 15300 15310 15320 15330 15340
AY2787 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15350 15360 15370 15380 15390 15400
>>AY278491 SARS coronavirus HKU-39849, complete genome. (29742 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15317-15342)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2784 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15290 15300 15310 15320 15330 15340
AY2784 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15350 15360 15370 15380 15390 15400
>>AY274119 SARS coronavirus TOR2, complete genome. (29736 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15302-15327)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2741 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15280 15290 15300 15310 15320 15330
AY2741 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15340 15350 15360 15370 15380 15390
>>AY291451 SARS coronavirus TW1, complete genome. (29729 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15317-15342)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2914 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15290 15300 15310 15320 15330 15340
AY2914 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15350 15360 15370 15380 15390 15400
>>AY278488 SARS coronavirus BJ01, complete genome. (29725 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15298-15323)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2784 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15270 15280 15290 15300 15310 15320
AY2784 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15330 15340 15350 15360 15370 15380
>>AY274119 SARS coronavirus TOR2, complete genome. (29751 nt)
initn: 130 init1: 130 opt: 130
banded Smith-Waterman score: 130; 100.000% identity (100.000% ungapped) in 26 nt overlap (1-26:15317-15342)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
::::::::::::::::::::::::::
AY2741 CGCAAACATAACACTTGCTGTAACTTATCACACCGTTTCTACAGGTTAGCTAACGAGTGT
15290 15300 15310 15320 15330 15340
AY2741 GCGCAAGTATTAAGTGAGATGGTCATGTGTGGCGGCTCACTATATGTTAAACCAGGTGGA
15350 15360 15370 15380 15390 15400
>>AC011230 Homo sapiens BAC clone CTD-2324K8 from 7,
complete sequence. (91311 nt)
rev-comp initn: 80 init1: 80 opt: 87
banded Smith-Waterman score: 87; 90.476% identity (90.476% ungapped) in 21 nt overlap (26-6:1428-1448)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
: :::::::::::::::: ::
AC0112 GAGAAAGGTGAAACTCAAGCATCTGCTACATGGTTAGCTAACCTGTAGCAAAAGAATCAG
1400 1410 1420 1430 1440 1450
AC0112 TGAAAACTGAATAAATATTCTAAGAACCAATCTCAAGAAACAATTCGTTTCAGTGCACAT
1460 1470 1480 1490 1500 1510
>>AC092104 Homo sapiens BAC clone RP11-397J20 from 7,
complete sequence. (54502 nt)
rev-comp initn: 80 init1: 80 opt: 87
banded Smith-Waterman score: 87; 90.476% identity (90.476% ungapped) in 21 nt overlap (26-6:53930-53950)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
: :::::::::::::::: ::
AC0921 GAGAAAGGTGAAACTCAAGCATCTGCTACATGGTTAGCTAACCTGTAGCAAAAGAATCAG
53900 53910 53920 53930 53940 53950
AC0921 TGAAAACTGAATAAATATTCTAAGAACCAATCTCAAGAAACAATTCGTTTCAGTGCACAT
53960 53970 53980 53990 54000 54010
>>AX706962 Sequence 660 from Patent WO03013534. (177531 nt)
rev-comp initn: 80 init1: 80 opt: 87
banded Smith-Waterman score: 87; 90.476% identity (90.476% ungapped) in 21 nt overlap (26-6:124537-124557)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
: :::::::::::::::: ::
AX7069 GAGAAAGGTGAAACTCAAGCACCTGCTGCATGGTTAGCTAACCTGTAGCAAGAGAATCAG
124510 124520 124530 124540 124550 124560
AX7069 TGAAAACTGAATAAATATTCTAAGGACCAATCTCAAGAAACAATTTGTTTCAGTACACAT
124570 124580 124590 124600 124610 124620
>>AX707892 Sequence 660 from Patent WO03013536. (177531 nt)
rev-comp initn: 80 init1: 80 opt: 87
banded Smith-Waterman score: 87; 90.476% identity (90.476% ungapped) in 21 nt overlap (26-6:124537-124557)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
: :::::::::::::::: ::
AX7078 GAGAAAGGTGAAACTCAAGCACCTGCTGCATGGTTAGCTAACCTGTAGCAAGAGAATCAG
124510 124520 124530 124540 124550 124560
AX7078 TGAAAACTGAATAAATATTCTAAGGACCAATCTCAAGAAACAATTTGTTTCAGTACACAT
124570 124580 124590 124600 124610 124620
>>AC140119 Homo sapiens 3 BAC RP11-747D18 (Roswell Park
Cancer Institute Human BAC (80892 nt)
initn: 86 init1: 86 opt: 86
banded Smith-Waterman score: 86; 94.737% identity (94.737% ungapped) in 19 nt overlap (6-24:80107-80125)
10 20
COR CACCGTTTCTACAGGTTAGCTAACGA
:::::::::::::: ::::
AC1401 TGTAGAATTGTCTCTTTGTATTGCTAGGTATTTCTACAGGTTAGATAACTGGAGATAAAA
80080 80090 80100 80110 80120 80130
AC1401 TTGCCTGATCAAAAGTTGCACACACTTTAGACTCTAATAAGTTATTAGATCCAATTGTAC
80140 80150 80160 80170 80180 80190
>>AC144561 Homo sapiens clone RP11-628C23, WORKING DRAFT
SEQUENCE, 3 unordered pieces. (176054 nt)
rev-comp initn: 86 init1: 86 opt: 86
banded Smith-Waterman score: 86; 94.737% identity (94.737% ungapped) in 19 nt overlap (24-6:103992-104010)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
:::: ::::::::::::::
AC1445 GCAACTTTTGATCAGGCAATTTTATCTCCAGTTATCTAACCTGTAGAAATACCTAGCAAT
103970 103980 103990 104000 104010 104020
AC1445 ACAAAGAGACAATTCTACAAAAAAAATTACTTACAGCAGTCTCTATGAAAGATTTGTATA
104030 104040 104050 104060 104070 104080
>>AP005855 Homo sapiens genomic DNA, chromosome 8q22, clone:
KB1560G11, complete (152531 nt)
rev-comp initn: 81 init1: 81 opt: 84
banded Smith-Waterman score: 84; 83.333% identity (83.333% ungapped) in 24 nt overlap (26-3:140936-140959)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
: :::::::::::: ::::: : :
AP0058 CATGGAAGAGAATAGAAATGTCCCAGTGAATAGTTAGCTAACCTCTAGAAGCAGAACCAC
140910 140920 140930 140940 140950 140960
AP0058 CTAGCTGCCTTGTAGCTCACCACATATTCATGGGCAAGCTCAGTGGAGACCAGAAGAACC
140970 140980 140990 141000 141010 141020
>>AE016806 Vibrio vulnificus CMCP6 chromosome I section 10
of 11 of the complete (304490 nt)
rev-comp initn: 84 init1: 84 opt: 84
banded Smith-Waterman score: 84; 83.333% identity (83.333% ungapped) in 24 nt overlap (25-2:180227-180250)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
:::: :: :::: :: ::::::::
AE0168 AGGCATTTCTAAAGCTGACCTAGAAAAAACCGTTGGCAAACCCGTTGAAACGGTTCCACA
180200 180210 180220 180230 180240 180250
AE0168 AATCTTCATCGATCAACAGCACATCGGTGGTTGTGATGACTTCGAAGCTTACGCAAAAGA
180260 180270 180280 180290 180300 180310
>>AE016870 Pseudomonas syringae pv. tomato str. DC3000
section 15 of 21 of the (310174 nt)
rev-comp initn: 84 init1: 84 opt: 84
banded Smith-Waterman score: 84; 83.333% identity (83.333% ungapped) in 24 nt overlap (26-3:105552-105575)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
:::: ::: ::: ::::: :::::
AE0168 TGCACTTTACGGTGCAGGATGGCCTGGAACTCGTCAGCGAACGTGTAGTAACGGCTGATC
105530 105540 105550 105560 105570 105580
AE0168 AAGGTCTCACTGCGCGCGGCGAAACGGTTGTAGGCAATAACGGCCGGGATGGCTGCGAAC
105590 105600 105610 105620 105630 105640
>>HS75K24 Human DNA sequence from clone RP1-75K24 on
chromosome 6q13-15 (80279 nt)
rev-comp initn: 82 init1: 82 opt: 83
banded Smith-Waterman score: 83; 86.364% identity (86.364% ungapped) in 22 nt overlap (26-5:41106-41127)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
: ::: : ::::::::::::::
HS75K2 ACCTAGTGATAGTTTCTGACTGGTGTCATCTGGTTGGTTAACCTGTAGAAACCTACCACA
41080 41090 41100 41110 41120 41130
HS75K2 TTGCGAGTGACACGATCCAGAAAGCTTGTATATTTTTATTCTCTTTCCTGGAATTAGAAA
41140 41150 41160 41170 41180 41190
>>AF233439 Homo sapiens chromosome 8 clone GS1-24F4,
CTD-2629I16 map p22-p21, complete (231283 nt)
rev-comp initn: 83 init1: 83 opt: 83
banded Smith-Waterman score: 83; 86.364% identity (86.364% ungapped) in 22 nt overlap (23-2:221895-221916)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
::::::::::: :: :: ::::
AF2334 CTTCCTGCCAGGAGAAGTAAGTGGGAAATATTAGCTAACCTTTAAAACCGGTAAAAAAGG
221870 221880 221890 221900 221910 221920
AF2334 GAGCTTTTGCCAGAAGCTGCATGTGAAATGGAGAGGTGTGGTCTAACAAAAGCCTCGTGG
221930 221940 221950 221960 221970 221980
>>AF233439 Homo sapiens chromosome 8 clone CTD-2629I16 map
p22-p21, complete sequence. (150940 nt)
rev-comp initn: 83 init1: 83 opt: 83
banded Smith-Waterman score: 83; 86.364% identity (86.364% ungapped) in 22 nt overlap (23-2:141559-141580)
20 10
COR- TCGTTAGCTAACCTGTAGAAACGGTG
::::::::::: :: :: ::::
AF2334 CTTCCTGCCAGGAGAAGTAAGTGGGAAATATTAGCTAACCTTTAAAACCGGTAAAAAAGG
141530 141540 141550 141560 141570 141580
AF2334 GAGCTTTTGCCAGAAGCTGCATGTGAAATGGAGAGGTGTGGTCTAGCAAAAGCCTCGTGG
141590 141600 141610 141620 141630 141640
26 residues in 1 query sequences
1041004857 residues in 248488 library sequences
Scomplib [34t11]
start: Wed May 28 13:11:01 2003 done: Wed May 28 13:28:56 2003
Scan time: 180.060 Display time: 0.180
Function used was FASTA [version 3.4t11 Apr 17, 2002]
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